Query 034085
Match_columns 104
No_of_seqs 107 out of 129
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 09:36:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034085.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034085hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3414 Component of the U4/U6 100.0 3.6E-65 7.8E-70 377.1 10.0 104 1-104 39-142 (142)
2 PF02966 DIM1: Mitosis protein 100.0 2.1E-65 4.6E-70 375.6 8.3 98 1-98 36-133 (133)
3 PLN00410 U5 snRNP protein, DIM 100.0 1.2E-42 2.5E-47 254.6 9.0 104 1-104 39-142 (142)
4 cd02986 DLP Dim1 family, Dim1- 100.0 4.3E-41 9.3E-46 240.3 8.0 84 1-85 30-114 (114)
5 cd02954 DIM1 Dim1 family; Dim1 99.8 7E-21 1.5E-25 135.2 8.8 84 2-85 31-114 (114)
6 cd02984 TRX_PICOT TRX domain, 96.4 0.011 2.5E-07 37.4 5.4 49 2-50 31-79 (97)
7 PF00085 Thioredoxin: Thioredo 96.0 0.055 1.2E-06 33.9 6.8 67 3-79 35-101 (103)
8 PRK11509 hydrogenase-1 operon 94.3 0.31 6.7E-06 35.7 7.3 67 6-82 57-124 (132)
9 cd02975 PfPDO_like_N Pyrococcu 94.0 0.36 7.7E-06 32.9 6.8 70 3-83 40-111 (113)
10 cd02965 HyaE HyaE family; HyaE 93.8 0.13 2.7E-06 36.7 4.3 48 3-50 47-94 (111)
11 cd03065 PDI_b_Calsequestrin_N 93.7 0.31 6.6E-06 34.6 6.2 69 2-81 48-118 (120)
12 PRK10996 thioredoxin 2; Provis 93.5 0.54 1.2E-05 33.1 7.2 69 3-81 70-138 (139)
13 cd02982 PDI_b'_family Protein 93.3 0.098 2.1E-06 33.4 3.0 46 3-48 30-77 (103)
14 cd02989 Phd_like_TxnDC9 Phosdu 93.3 0.15 3.2E-06 34.9 3.9 50 2-52 39-88 (113)
15 cd02947 TRX_family TRX family; 92.7 0.67 1.4E-05 27.4 5.8 48 2-50 27-74 (93)
16 TIGR01126 pdi_dom protein disu 92.0 0.3 6.5E-06 30.6 3.9 48 3-50 31-80 (102)
17 TIGR01068 thioredoxin thioredo 92.0 1.5 3.1E-05 27.2 6.9 68 2-79 31-98 (101)
18 cd03001 PDI_a_P5 PDIa family, 91.4 0.58 1.3E-05 29.6 4.7 54 3-56 36-89 (103)
19 cd03002 PDI_a_MPD1_like PDI fa 90.7 0.5 1.1E-05 30.4 4.0 48 3-50 36-85 (109)
20 cd03004 PDI_a_ERdj5_C PDIa fam 90.5 0.8 1.7E-05 29.5 4.8 47 3-49 37-83 (104)
21 cd02961 PDI_a_family Protein D 90.1 1 2.2E-05 27.4 4.8 47 3-50 33-81 (101)
22 cd02949 TRX_NTR TRX domain, no 89.1 1.5 3.3E-05 28.3 5.3 66 3-78 31-96 (97)
23 cd02957 Phd_like Phosducin (Ph 89.0 0.96 2.1E-05 30.3 4.4 50 2-53 41-90 (113)
24 cd02962 TMX2 TMX2 family; comp 88.8 1.9 4.2E-05 31.6 6.3 52 3-54 65-123 (152)
25 cd02963 TRX_DnaJ TRX domain, D 88.8 1.2 2.5E-05 29.9 4.7 57 3-61 42-99 (111)
26 cd03003 PDI_a_ERdj5_N PDIa fam 88.4 1.3 2.7E-05 28.6 4.5 47 3-49 36-82 (101)
27 KOG0910 Thioredoxin-like prote 88.3 1.2 2.7E-05 33.7 5.0 68 3-80 79-146 (150)
28 TIGR02187 GlrX_arch Glutaredox 86.9 4.4 9.6E-05 30.2 7.3 72 3-83 40-112 (215)
29 cd02996 PDI_a_ERp44 PDIa famil 86.9 2.1 4.5E-05 28.0 4.9 58 3-61 36-99 (108)
30 PTZ00443 Thioredoxin domain-co 85.0 5.8 0.00013 31.0 7.4 74 3-86 70-143 (224)
31 cd03005 PDI_a_ERp46 PDIa famil 84.5 4 8.6E-05 25.7 5.2 46 3-49 34-82 (102)
32 cd02956 ybbN ybbN protein fami 84.3 4.8 0.0001 25.4 5.6 45 3-47 30-74 (96)
33 cd02995 PDI_a_PDI_a'_C PDIa fa 83.0 4 8.7E-05 25.6 4.8 57 2-59 35-93 (104)
34 cd02951 SoxW SoxW family; SoxW 82.3 8.9 0.00019 25.6 6.5 71 9-88 41-125 (125)
35 TIGR01295 PedC_BrcD bacterioci 82.1 5.6 0.00012 27.7 5.6 65 3-78 41-120 (122)
36 KOG0907 Thioredoxin [Posttrans 81.7 6.2 0.00013 27.4 5.7 43 6-50 42-84 (106)
37 cd02985 TRX_CDSP32 TRX family, 81.4 3.1 6.7E-05 27.4 4.0 54 3-59 33-89 (103)
38 cd02999 PDI_a_ERp44_like PDIa 78.9 3.5 7.6E-05 27.3 3.6 46 3-50 36-82 (100)
39 cd03000 PDI_a_TMX3 PDIa family 77.8 16 0.00035 23.6 6.5 45 5-50 35-82 (104)
40 cd02994 PDI_a_TMX PDIa family, 77.5 14 0.0003 23.5 6.0 44 3-46 34-78 (101)
41 COG1274 PckA Phosphoenolpyruva 77.0 2 4.4E-05 38.8 2.6 38 54-97 95-132 (608)
42 PRK09381 trxA thioredoxin; Pro 76.2 18 0.00039 23.3 7.5 51 3-54 39-89 (109)
43 cd03006 PDI_a_EFP1_N PDIa fami 76.0 9.1 0.0002 26.5 5.2 49 3-52 47-96 (113)
44 PHA02278 thioredoxin-like prot 75.9 5.4 0.00012 27.2 3.9 47 3-49 32-82 (103)
45 PTZ00051 thioredoxin; Provisio 75.7 10 0.00022 23.8 5.0 44 3-47 36-79 (98)
46 cd07034 TPP_PYR_PFOR_IOR-alpha 74.1 4.8 0.0001 28.1 3.4 31 62-92 124-154 (160)
47 cd02948 TRX_NDPK TRX domain, T 72.9 8.8 0.00019 25.1 4.3 46 3-50 35-81 (102)
48 cd02993 PDI_a_APS_reductase PD 72.3 15 0.00032 24.3 5.3 46 2-47 38-86 (109)
49 cd02997 PDI_a_PDIR PDIa family 70.8 17 0.00037 22.7 5.1 48 3-51 35-86 (104)
50 cd02953 DsbDgamma DsbD gamma f 68.9 14 0.0003 23.8 4.5 39 8-46 37-79 (104)
51 cd02987 Phd_like_Phd Phosducin 68.5 13 0.00029 27.4 4.9 49 2-52 100-148 (175)
52 PRK04210 phosphoenolpyruvate c 67.2 5.7 0.00012 36.0 3.1 38 54-97 88-125 (601)
53 cd02998 PDI_a_ERp38 PDIa famil 66.2 19 0.0004 22.4 4.6 48 2-49 35-85 (105)
54 cd02973 TRX_GRX_like Thioredox 66.2 16 0.00034 21.7 4.1 46 4-52 18-63 (67)
55 TIGR00424 APS_reduc 5'-adenyly 64.1 16 0.00035 31.7 5.2 54 3-56 389-445 (463)
56 cd02955 SSP411 TRX domain, SSP 63.9 36 0.00078 24.1 6.1 68 9-81 42-118 (124)
57 PF11399 DUF3192: Protein of u 62.8 5.5 0.00012 28.6 1.8 32 28-59 46-77 (102)
58 cd02950 TxlA TRX-like protein 62.7 52 0.0011 23.2 7.0 74 3-85 38-113 (142)
59 COG0526 TrxA Thiol-disulfide i 62.1 24 0.00053 20.5 4.3 49 3-51 50-101 (127)
60 KOG4122 Mitochondrial/chloropl 59.7 6 0.00013 24.1 1.3 27 77-103 10-36 (38)
61 cd00819 PEPCK_GTP Phosphoenolp 58.6 9.9 0.00022 34.4 3.0 37 55-97 75-111 (579)
62 TIGR02187 GlrX_arch Glutaredox 57.9 43 0.00093 24.9 5.9 64 3-80 151-214 (215)
63 cd02952 TRP14_like Human TRX-r 57.2 21 0.00046 25.3 4.0 44 3-46 46-97 (119)
64 cd05796 Ribosomal_P0_like Ribo 56.2 23 0.0005 26.0 4.2 79 5-85 5-103 (163)
65 cd05795 Ribosomal_P0_L10e Ribo 54.7 22 0.00048 26.4 3.9 79 5-85 5-102 (175)
66 PLN02309 5'-adenylylsulfate re 54.3 32 0.00069 29.9 5.3 46 2-47 382-430 (457)
67 TIGR01130 ER_PDI_fam protein d 53.6 38 0.00082 26.8 5.3 49 3-51 36-87 (462)
68 TIGR00411 redox_disulf_1 small 50.1 37 0.00081 20.4 3.8 64 3-80 17-80 (82)
69 PF14479 HeLo: Prion-inhibitio 49.6 14 0.0003 27.1 2.1 24 58-81 146-169 (212)
70 cd02992 PDI_a_QSOX PDIa family 48.9 34 0.00074 23.0 3.9 47 3-49 37-88 (114)
71 PTZ00062 glutaredoxin; Provisi 46.2 46 0.001 25.7 4.6 49 2-61 34-82 (204)
72 cd07038 TPP_PYR_PDC_IPDC_like 43.9 31 0.00067 24.9 3.2 31 62-92 126-156 (162)
73 PHA02152 hypothetical protein 41.5 20 0.00044 25.5 1.8 46 38-87 2-47 (96)
74 PF05972 APC_15aa: APC 15 resi 41.0 10 0.00022 19.3 0.2 10 94-103 4-13 (16)
75 cd02958 UAS UAS family; UAS is 40.9 1E+02 0.0023 20.3 5.9 63 10-81 45-110 (114)
76 COG0028 IlvB Thiamine pyrophos 39.8 36 0.00079 29.8 3.5 37 62-98 123-162 (550)
77 KOG2013 SMT3/SUMO-activating c 39.4 23 0.00051 32.2 2.3 39 5-53 26-64 (603)
78 PF06713 bPH_4: Bacterial PH d 37.9 63 0.0014 20.8 3.6 31 48-80 42-72 (74)
79 cd07035 TPP_PYR_POX_like Pyrim 37.7 51 0.0011 22.7 3.4 30 62-91 118-148 (155)
80 PF00821 PEPCK: Phosphoenolpyr 37.5 16 0.00034 33.1 1.0 28 69-96 83-110 (586)
81 cd06155 eu_AANH_C_1 A group of 37.3 7.5 0.00016 26.0 -0.8 35 3-37 35-71 (101)
82 PF01320 Colicin_Pyocin: Colic 35.0 30 0.00066 23.9 1.9 17 69-85 10-26 (85)
83 cd02983 P5_C P5 family, C-term 33.4 1.7E+02 0.0037 20.5 6.5 40 4-43 43-85 (130)
84 KOG3048 Molecular chaperone Pr 33.2 23 0.00049 27.3 1.1 21 37-60 73-93 (153)
85 cd02988 Phd_like_VIAF Phosduci 31.5 94 0.002 23.4 4.2 46 2-51 119-164 (192)
86 PF08923 MAPKK1_Int: Mitogen-a 30.2 46 0.001 23.8 2.2 32 1-32 1-32 (119)
87 PRK00831 rpmJ 50S ribosomal pr 30.1 37 0.0008 20.9 1.5 18 86-103 22-39 (41)
88 PF07978 NIPSNAP: NIPSNAP ; I 29.6 1.4E+02 0.003 19.0 4.2 61 19-84 4-71 (102)
89 PTZ00135 60S acidic ribosomal 28.8 94 0.002 25.6 4.1 91 5-97 12-120 (310)
90 PTZ00102 disulphide isomerase; 28.2 1.9E+02 0.004 23.5 5.6 47 6-52 70-119 (477)
91 cd02959 ERp19 Endoplasmic reti 27.9 1E+02 0.0023 21.0 3.6 44 3-46 37-83 (117)
92 PRK00293 dipZ thiol:disulfide 27.7 1.5E+02 0.0033 26.0 5.3 65 8-81 500-569 (571)
93 KOG0911 Glutaredoxin-related p 26.2 42 0.00091 27.2 1.6 47 2-50 34-81 (227)
94 cd06150 YjgF_YER057c_UK114_lik 25.7 17 0.00037 24.2 -0.6 34 4-37 39-74 (105)
95 PF08800 VirE_N: VirE N-termin 25.1 1.2E+02 0.0026 21.6 3.6 53 11-71 24-80 (136)
96 PF10413 Rhodopsin_N: Amino te 24.5 16 0.00035 22.1 -0.8 13 88-100 15-27 (36)
97 cd00448 YjgF_YER057c_UK114_fam 24.3 21 0.00046 22.8 -0.4 34 4-37 42-77 (107)
98 TIGR00004 endoribonuclease L-P 24.2 24 0.00051 24.1 -0.2 34 3-36 57-92 (124)
99 PTZ00102 disulphide isomerase; 22.9 2.6E+02 0.0057 22.6 5.6 71 3-82 393-465 (477)
100 KOG0191 Thioredoxin/protein di 22.8 1.2E+02 0.0026 24.6 3.6 43 7-49 69-111 (383)
101 COG0836 {ManC} Mannose-1-phosp 22.7 91 0.002 26.6 3.0 36 68-104 118-156 (333)
102 TIGR03610 RutC pyrimidine util 22.4 22 0.00047 25.0 -0.6 34 4-37 60-95 (127)
103 PF13848 Thioredoxin_6: Thiore 22.4 2E+02 0.0043 19.7 4.2 39 5-43 115-156 (184)
104 TIGR01866 cas_Csn2 CRISPR-asso 22.2 1.2E+02 0.0026 24.0 3.4 32 64-95 18-49 (216)
105 cd07039 TPP_PYR_POX Pyrimidine 22.1 1.1E+02 0.0024 22.1 3.0 31 62-92 122-152 (164)
106 PF01042 Ribonuc_L-PSP: Endori 22.0 33 0.00072 23.3 0.2 35 3-37 52-88 (121)
107 COG2351 Transthyretin-like pro 21.8 18 0.00038 27.0 -1.2 50 54-103 70-123 (124)
108 KOG1643 Triosephosphate isomer 21.4 1.1E+02 0.0024 25.1 3.1 36 58-96 7-43 (247)
109 TIGR01130 ER_PDI_fam protein d 21.1 4.2E+02 0.0092 20.9 6.9 42 3-46 382-426 (462)
110 PF00444 Ribosomal_L36: Riboso 21.1 64 0.0014 19.3 1.3 18 86-103 19-36 (38)
111 cd06152 YjgF_YER057c_UK114_lik 20.7 39 0.00085 23.3 0.4 35 3-37 43-83 (114)
112 TIGR01504 glyox_carbo_lig glyo 20.1 1.4E+02 0.003 25.9 3.6 37 61-97 125-164 (588)
No 1
>KOG3414 consensus Component of the U4/U6.U5 snRNP/mitosis protein DIM1 [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.6e-65 Score=377.11 Aligned_cols=104 Identities=77% Similarity=1.272 Sum_probs=103.0
Q ss_pred CcchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 1 MQMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 1 m~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
|||||+|+++|++|||||+|||||++|||+|++||||+||+|+||||||||||||+||||||||||++++|||||||+|+
T Consensus 39 ~~mD~~L~~i~~~vsnfa~IylvdideV~~~~~~~~l~~p~tvmfFfn~kHmkiD~gtgdn~Kin~~~~~kq~~Idiie~ 118 (142)
T KOG3414|consen 39 MKMDELLSSIAEDVSNFAVIYLVDIDEVPDFVKMYELYDPPTVMFFFNNKHMKIDLGTGDNNKINFAFEDKQEFIDIIET 118 (142)
T ss_pred hhHHHHHHHHHHHHhhceEEEEEecchhhhhhhhhcccCCceEEEEEcCceEEEeeCCCCCceEEEEeccHHHHHHHHHH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccccCceeEEccCCccccccC
Q 034085 81 VYRGARKGRGLVIAPKDYSTKYRY 104 (104)
Q Consensus 81 iyrgA~kGkglV~sP~dy~~~~~~ 104 (104)
|||||+||||||+||+||+++|+|
T Consensus 119 iyRga~KGKgiV~sP~dy~~~y~~ 142 (142)
T KOG3414|consen 119 IYRGARKGKGIVQSPKDYSTLYRY 142 (142)
T ss_pred HHHhhhcCCeEEECCcchHhhccC
Confidence 999999999999999999999986
No 2
>PF02966 DIM1: Mitosis protein DIM1; InterPro: IPR004123 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of 2 cysteine thiol groups to a disulphide, accompanied by the transfer of 2 electrons and 2 protons. The net result is the covalent interconversion of a disulphide and a dithiol. Compared to human thioredoxin, human U5 snRNP-specific protein U5-15kDa contains 37 additional residues that may cause structural changes which most likely form putative binding sites for other spliceosomal proteins or RNA. Although U5-15kDa apparently lacks protein disulphide isomerase activity, it is strictly required for pre-mRNA splicing [].; GO: 0007067 mitosis, 0005681 spliceosomal complex; PDB: 1SYX_E 1PQN_A 1QGV_A 2AV4_A 1XBS_A 3GIX_A.
Probab=100.00 E-value=2.1e-65 Score=375.63 Aligned_cols=98 Identities=80% Similarity=1.372 Sum_probs=91.3
Q ss_pred CcchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 1 MQMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 1 m~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
|+|||+|+++|++|||||+||+||++|||+||+||||+||||+||||||||||||+||||||||||++++|||||||||+
T Consensus 36 m~mDeiL~~~a~~v~~~a~IY~vDi~~Vpdfn~~yel~dP~tvmFF~rnkhm~vD~GtgnnnKin~~~~~kqe~iDiie~ 115 (133)
T PF02966_consen 36 MQMDEILYKIAEKVKNFAVIYLVDIDEVPDFNQMYELYDPCTVMFFFRNKHMMVDFGTGNNNKINWAFEDKQEFIDIIET 115 (133)
T ss_dssp HHHHHHHHHHHHHHTTTEEEEEEETTTTHCCHHHTTS-SSEEEEEEETTEEEEEESSSSSSSSBCS--SCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhcceEEEEEEcccchhhhcccccCCCeEEEEEecCeEEEEEecCCCccEEEEEcCcHHHHHHHHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccccCceeEEccCCc
Q 034085 81 VYRGARKGRGLVIAPKDY 98 (104)
Q Consensus 81 iyrgA~kGkglV~sP~dy 98 (104)
|||||+||||||+||+||
T Consensus 116 iyrga~kGk~iv~sP~dy 133 (133)
T PF02966_consen 116 IYRGARKGKGIVVSPKDY 133 (133)
T ss_dssp HHHHHHTT-SEEE-SS-G
T ss_pred HHHHhhcCCeeEeCCCCC
Confidence 999999999999999998
No 3
>PLN00410 U5 snRNP protein, DIM1 family; Provisional
Probab=100.00 E-value=1.2e-42 Score=254.57 Aligned_cols=104 Identities=96% Similarity=1.465 Sum_probs=101.8
Q ss_pred CcchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 1 MQMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 1 m~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
+.||++|.++|++++++|.||.||++++|+++++|++.+|+|+||||||.||+||.||||||||||++.+||+|||++|+
T Consensus 39 k~m~p~l~~la~~~~~~~~~~kVDVDe~~dla~~y~I~~~~t~~~ffk~g~~~vd~~tG~~~k~~~~~~~k~~l~~~i~~ 118 (142)
T PLN00410 39 MQMDEVLASVAETIKNFAVIYLVDITEVPDFNTMYELYDPCTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 118 (142)
T ss_pred HHHHHHHHHHHHHcCCceEEEEEECCCCHHHHHHcCccCCCcEEEEEECCeEEEEEecccccccccccCCHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccccCceeEEccCCccccccC
Q 034085 81 VYRGARKGRGLVIAPKDYSTKYRY 104 (104)
Q Consensus 81 iyrgA~kGkglV~sP~dy~~~~~~ 104 (104)
+||||+||||||+||+||||++||
T Consensus 119 ~~~~a~~g~~~~~~~~~~~~~~~~ 142 (142)
T PLN00410 119 VYRGARKGRGLVISPKDYSTKYRY 142 (142)
T ss_pred HHHHHhcCCeEEECCCcccccccC
Confidence 999999999999999999999986
No 4
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=100.00 E-value=4.3e-41 Score=240.29 Aligned_cols=84 Identities=39% Similarity=0.821 Sum_probs=81.7
Q ss_pred CcchHHHHHhHHhhhcceEEEEEeCCCccccccccccc-ccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHH
Q 034085 1 MQMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELY-DPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVE 79 (104)
Q Consensus 1 m~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~-dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie 79 (104)
++||++|+++|++++++|+||.||++|+|+++++|++. +|+++ ||+||||||||+||||||||||++++|||||||||
T Consensus 30 k~mdp~l~ela~~~~~~~~f~kVDVDev~dva~~y~I~amPtfv-ffkngkh~~~d~gt~~~~k~~~~~~~k~~~idi~e 108 (114)
T cd02986 30 LQLDDILSKTSHDLSKMASIYLVDVDKVPVYTQYFDISYIPSTI-FFFNGQHMKVDYGSPDHTKFVGSFKTKQDFIDLIE 108 (114)
T ss_pred HHHHHHHHHHHHHccCceEEEEEeccccHHHHHhcCceeCcEEE-EEECCcEEEEecCCCCCcEEEEEcCchhHHHHHHH
Confidence 47999999999999999999999999999999999997 89997 99999999999999999999999999999999999
Q ss_pred HHhhcc
Q 034085 80 TVYRGA 85 (104)
Q Consensus 80 ~iyrgA 85 (104)
+|||||
T Consensus 109 ~~yr~a 114 (114)
T cd02986 109 VIYRGA 114 (114)
T ss_pred HHHcCC
Confidence 999997
No 5
>cd02954 DIM1 Dim1 family; Dim1 is also referred to as U5 small nuclear ribonucleoprotein particle (snRNP)-specific 15kD protein. It is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 interacts with multiple splicing-associated proteins, suggesting that it functions at multiple control points in the splicing of pre-mRNA as part of a large spliceosomal complex involving many protein-protein interactions. U5 snRNP contains seven core proteins (common to all snRNPs) and nine U5-specific proteins, one of which is Dim1. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif. It is essential for G2/M phase transition, as a consequence to its role in pre-mRNA splicing.
Probab=99.84 E-value=7e-21 Score=135.21 Aligned_cols=84 Identities=81% Similarity=1.338 Sum_probs=80.7
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHHH
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETV 81 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~i 81 (104)
.|+.+|.++|++.++.+.++.||+++.|+..+.|++..-+|++||-+++++..+.|+|||+||+|+++|||+||||||.+
T Consensus 31 ~m~P~le~la~~~~~~v~f~kVDvD~~~~la~~~~V~~iPTf~~fk~G~~v~~~~G~~~~~~~~~~~~~~~~~~~~~~~~ 110 (114)
T cd02954 31 QMDEVLAKIAEDVSNFAVIYLVDIDEVPDFNKMYELYDPPTVMFFFRNKHMKIDLGTGNNNKINWVFEDKQEFIDIIETI 110 (114)
T ss_pred HHHHHHHHHHHHccCceEEEEEECCCCHHHHHHcCCCCCCEEEEEECCEEEEEEcCCCCCceEEEecCcHHHHHHHHHHH
Confidence 47889999999999989999999999999999999988889999999999999999999999999999999999999999
Q ss_pred hhcc
Q 034085 82 YRGA 85 (104)
Q Consensus 82 yrgA 85 (104)
||||
T Consensus 111 ~~~~ 114 (114)
T cd02954 111 YRGA 114 (114)
T ss_pred hcCC
Confidence 9986
No 6
>cd02984 TRX_PICOT TRX domain, PICOT (for PKC-interacting cousin of TRX) subfamily; PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT contains an N-terminal TRX-like domain, which does not contain the catalytic CXXC motif, followed by one to three glutaredoxin domains. The TRX-like domain is required for interaction with PKC theta. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli.
Probab=96.41 E-value=0.011 Score=37.45 Aligned_cols=49 Identities=20% Similarity=0.409 Sum_probs=41.1
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
+|++.|.+++++..+-..++-+|.++.|+..+.|.+...+|++||-+++
T Consensus 31 ~~~~~l~~l~~~~~~~i~~~~vd~~~~~~~~~~~~i~~~Pt~~~~~~g~ 79 (97)
T cd02984 31 QMNQVFEELAKEAFPSVLFLSIEAEELPEISEKFEITAVPTFVFFRNGT 79 (97)
T ss_pred HHhHHHHHHHHHhCCceEEEEEccccCHHHHHhcCCccccEEEEEECCE
Confidence 4788899999987666788999999999999999998888887876554
No 7
>PF00085 Thioredoxin: Thioredoxin; InterPro: IPR013766 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of two cysteine thiol groups to a disulphide, accompanied by the transfer of two electrons and two protons. The net result is the covalent interconversion of a disulphide and a dithiol. In the NADPH-dependent protein disulphide reduction, thioredoxin reductase (TR) catalyses the reduction of oxidised thioredoxin (trx) by NADPH using FAD and its redox-active disulphide; reduced thioredoxin then directly reduces the disulphide in the substrate protein []. Thioredoxin is present in prokaryotes and eukaryotes and the sequence around the redox-active disulphide bond is well conserved. All thioredoxins contain a cis-proline located in a loop preceding beta-strand 4, which makes contact with the active site cysteines, and is important for stability and function []. Thioredoxin belongs to a structural family that includes glutaredoxin, glutathione peroxidase, bacterial protein disulphide isomerase DsbA, and the N-terminal domain of glutathione transferase []. Thioredoxins have a beta-alpha unit preceding the motif common to all these proteins. A number of eukaryotic proteins contain domains evolutionary related to thioredoxin, most of them are protein disulphide isomerases (PDI). PDI (5.3.4.1 from EC) [, , ] is an endoplasmic reticulum multi-functional enzyme that catalyses the formation and rearrangement of disulphide bonds during protein folding []. All PDI contains two or three (ERp72) copies of the thioredoxin domain, each of which contributes to disulphide isomerase activity, but which are functionally non-equivalent []. Moreover, PDI exhibits chaperone-like activity towards proteins that contain no disulphide bonds, i.e. behaving independently of its disulphide isomerase activity []. The various forms of PDI which are currently known are: PDI major isozyme; a multifunctional protein that also function as the beta subunit of prolyl 4-hydroxylase (1.14.11.2 from EC), as a component of oligosaccharyl transferase (2.4.1.119 from EC), as thyroxine deiodinase (3.8.1.4 from EC), as glutathione-insulin transhydrogenase (1.8.4.2 from EC) and as a thyroid hormone-binding protein ERp60 (ER-60; 58 Kd microsomal protein). ERp60 was originally thought to be a phosphoinositide-specific phospholipase C isozyme and later to be a protease. ERp72. ERp5. Bacterial proteins that act as thiol:disulphide interchange proteins that allows disulphide bond formation in some periplasmic proteins also contain a thioredoxin domain. These proteins include: Escherichia coli DsbA (or PrfA) and its orthologs in Vibrio cholerae (TtcpG) and Haemophilus influenzae (Por). E. coli DsbC (or XpRA) and its orthologues in Erwinia chrysanthemi and H. influenzae. E. coli DsbD (or DipZ) and its H. influenzae orthologue. E. coli DsbE (or CcmG) and orthologues in H. influenzae. Rhodobacter capsulatus (Rhodopseudomonas capsulata) (HelX), Rhiziobiacae (CycY and TlpA). This entry represents the thioredoxin domain.; GO: 0045454 cell redox homeostasis; PDB: 3ED3_B 1EP7_A 1EP8_B 1TOF_A 2OE3_B 2OE1_B 2OE0_B 1V98_A 3H79_A 3CXG_A ....
Probab=95.96 E-value=0.055 Score=33.93 Aligned_cols=67 Identities=21% Similarity=0.381 Sum_probs=49.3
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVE 79 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie 79 (104)
+-..|.+++++.++=..++.+|.++-+++.+-|++...+|++||-+++... .+++. .+++++++.|+
T Consensus 35 ~~~~~~~~~~~~~~~v~~~~vd~~~~~~l~~~~~v~~~Pt~~~~~~g~~~~---------~~~g~-~~~~~l~~~i~ 101 (103)
T PF00085_consen 35 FKPILEKLAKEYKDNVKFAKVDCDENKELCKKYGVKSVPTIIFFKNGKEVK---------RYNGP-RNAESLIEFIE 101 (103)
T ss_dssp HHHHHHHHHHHTTTTSEEEEEETTTSHHHHHHTTCSSSSEEEEEETTEEEE---------EEESS-SSHHHHHHHHH
T ss_pred ccceecccccccccccccchhhhhccchhhhccCCCCCCEEEEEECCcEEE---------EEECC-CCHHHHHHHHH
Confidence 456788999998866678999999999999999999888877665555443 33333 35566666654
No 8
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=94.27 E-value=0.31 Score=35.75 Aligned_cols=67 Identities=7% Similarity=0.219 Sum_probs=51.1
Q ss_pred HHHHhHHhhhcc-eEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHHHh
Q 034085 6 VLSSVAETIKNF-AVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETVY 82 (104)
Q Consensus 6 ~L~~~a~~v~~f-a~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~iy 82 (104)
+|.+++++.... ..++.||+++-|+.-.-|.+.-=+|++||=+++-+- ++++ +.+|+++...|+.+.
T Consensus 57 vleELa~e~~~~~v~~akVDiD~~~~LA~~fgV~siPTLl~FkdGk~v~---------~i~G-~~~k~~l~~~I~~~L 124 (132)
T PRK11509 57 MIGELLREFPDYTWQVAIADLEQSEAIGDRFGVFRFPATLVFTGGNYRG---------VLNG-IHPWAELINLMRGLV 124 (132)
T ss_pred HHHHHHHHhcCCceEEEEEECCCCHHHHHHcCCccCCEEEEEECCEEEE---------EEeC-cCCHHHHHHHHHHHh
Confidence 688889988756 789999999999999999997656877776555442 3333 457788888887654
No 9
>cd02975 PfPDO_like_N Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO)-like family, N-terminal TRX-fold subdomain; composed of proteins with similarity to PfPDO, a redox active thermostable protein believed to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI), which are both involved in oxidative protein folding. PfPDO contains two redox active CXXC motifs in two contiguous TRX-fold subdomains. The active site in the N-terminal TRX-fold subdomain is required for isomerase but not for reductase activity of PfPDO. The exclusive presence of PfPDO-like proteins in extremophiles may suggest that they have a special role in adaptation to extreme conditions.
Probab=94.00 E-value=0.36 Score=32.90 Aligned_cols=70 Identities=19% Similarity=0.322 Sum_probs=48.7
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCc--eEEeecCChhHHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNN--KINWALKDKQEFIDIVET 80 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnn--Kin~~~~~kQefIDiie~ 80 (104)
|-.+|.+++++. .-..++.+|+++-|+..+-|.+.-=+|+++| ++ .|... ++.+ ..++.||.++|+.
T Consensus 40 ~~~~l~~la~~~-~~i~~~~vd~d~~~~l~~~~~v~~vPt~~i~-~~--------g~~~~~~~~~G-~~~~~el~~~i~~ 108 (113)
T cd02975 40 TKQLLEELSELS-DKLKLEIYDFDEDKEKAEKYGVERVPTTIFL-QD--------GGKDGGIRYYG-LPAGYEFASLIED 108 (113)
T ss_pred HHHHHHHHHHhc-CceEEEEEeCCcCHHHHHHcCCCcCCEEEEE-eC--------CeecceEEEEe-cCchHHHHHHHHH
Confidence 445677777654 3467899999999999999998654565444 32 12223 3444 6777999999999
Q ss_pred Hhh
Q 034085 81 VYR 83 (104)
Q Consensus 81 iyr 83 (104)
|+.
T Consensus 109 i~~ 111 (113)
T cd02975 109 IVR 111 (113)
T ss_pred HHh
Confidence 985
No 10
>cd02965 HyaE HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the sole energy source. The E. coli HyaE protein is a chaperone that specifically interacts with the twin-arginine translocation (Tat) signal peptide of the [NiFe] hydrogenase-1 beta subunit precursor. Tat signal peptides target precursor proteins to the Tat protein export system, which facilitates the transport of fully folded proteins across the inner membrane. HyaE may be involved in regulating the traffic of [NiFe] hydrogenase-1 on the Tat transport pathway.
Probab=93.75 E-value=0.13 Score=36.70 Aligned_cols=48 Identities=10% Similarity=0.211 Sum_probs=41.7
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
|..+|.++|++..+-..++.||+++-|....-|.+..-+|+|||-+++
T Consensus 47 i~P~leela~e~~~~v~f~kVdid~~~~la~~f~V~sIPTli~fkdGk 94 (111)
T cd02965 47 VAVVLPELLKAFPGRFRAAVVGRADEQALAARFGVLRTPALLFFRDGR 94 (111)
T ss_pred hHhHHHHHHHHCCCcEEEEEEECCCCHHHHHHcCCCcCCEEEEEECCE
Confidence 567889999999888899999999999999999998777988887665
No 11
>cd03065 PDI_b_Calsequestrin_N PDIb family, Calsequestrin subfamily, N-terminal TRX-fold domain; Calsequestrin is the major calcium storage protein in the sarcoplasmic reticulum (SR) of skeletal and cardiac muscle. It stores calcium ions in sufficient quantities (up to 20 mM) to allow repetitive contractions and is essential to maintain movement, respiration and heart beat. A missense mutation in human cardiac calsequestrin is associated with catecholamine-induced polymorphic ventricular tachycardia (CPVT), a rare disease characterized by seizures or sudden death in response to physiologic or emotional stress. Calsequestrin is a highly acidic protein with up to 50 calcium binding sites formed simply by the clustering of two or more acidic residues. The monomer contains three redox inactive TRX-fold domains. Calsequestrin is condensed as a linear polymer in the SR lumen and is membrane-anchored through binding with intra-membrane proteins triadin, junctin and ryanodine receptor (RyR) Ca2
Probab=93.70 E-value=0.31 Score=34.64 Aligned_cols=69 Identities=16% Similarity=0.253 Sum_probs=49.1
Q ss_pred cchHHHHHhHHhh--hcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHH
Q 034085 2 QMDEVLSSVAETI--KNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVE 79 (104)
Q Consensus 2 ~mDe~L~~~a~~v--~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie 79 (104)
.|-.+|+++|.+. +.=+.++-||+++-|+.-+-|.+..-+|+++|-+++ .++ =+|.. +++++...|+
T Consensus 48 ~~~p~~~~~aa~~l~~~~v~~~kVD~d~~~~La~~~~I~~iPTl~lfk~G~--~v~-~~G~~--------~~~~l~~~l~ 116 (120)
T cd03065 48 QMEELVLELAAQVLEDKGIGFGLVDSKKDAKVAKKLGLDEEDSIYVFKDDE--VIE-YDGEF--------AADTLVEFLL 116 (120)
T ss_pred cchhhHHHHHHHHhhcCCCEEEEEeCCCCHHHHHHcCCccccEEEEEECCE--EEE-eeCCC--------CHHHHHHHHH
Confidence 3556677777776 545899999999999999999998877987776554 344 22322 4567776666
Q ss_pred HH
Q 034085 80 TV 81 (104)
Q Consensus 80 ~i 81 (104)
.+
T Consensus 117 ~~ 118 (120)
T cd03065 117 DL 118 (120)
T ss_pred HH
Confidence 54
No 12
>PRK10996 thioredoxin 2; Provisional
Probab=93.47 E-value=0.54 Score=33.08 Aligned_cols=69 Identities=17% Similarity=0.304 Sum_probs=48.5
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETV 81 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~i 81 (104)
|..+|.+++++.+.-..++.+|+++.|++.+-|.+...+|++|| ++..+ ++--.| . .+++++.+.++.+
T Consensus 70 ~~~~l~~l~~~~~~~v~~~~vd~~~~~~l~~~~~V~~~Ptlii~-~~G~~-v~~~~G-------~-~~~e~l~~~l~~~ 138 (139)
T PRK10996 70 FAPIFEDVAAERSGKVRFVKVNTEAERELSARFRIRSIPTIMIF-KNGQV-VDMLNG-------A-VPKAPFDSWLNEA 138 (139)
T ss_pred HHHHHHHHHHHhCCCeEEEEEeCCCCHHHHHhcCCCccCEEEEE-ECCEE-EEEEcC-------C-CCHHHHHHHHHHh
Confidence 45678888888776677888999999999999999877776555 54443 333223 2 3567777777654
No 13
>cd02982 PDI_b'_family Protein Disulfide Isomerase (PDIb') family, redox inactive TRX-like domain b'; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI, calsequestrin and other PDI-related proteins like ERp72, ERp57 (or ERp60), ERp44, P5 and PDIR. PDI, ERp57, ERp72, P5 and PDIR are all oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. These proteins contain multiple copies of a redox active TRX (a) domain containing a CXXC motif, and one or more redox inactive TRX-like (b) domains. The molecular structure of PDI is abb'a'. Also included in this family is the PDI-related protein ERp27, w
Probab=93.35 E-value=0.098 Score=33.44 Aligned_cols=46 Identities=17% Similarity=0.223 Sum_probs=38.6
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCccccccccccc--ccceEEEEEe
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELY--DPSTVMFFFR 48 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~--dP~tvMFFfr 48 (104)
+-+.|.++|++.+.-..++.+|.++-|++.+.|.|. ..+|+++|-.
T Consensus 30 ~~~~~~~vA~~~~~~v~f~~vd~~~~~~~~~~~~i~~~~~P~~~~~~~ 77 (103)
T cd02982 30 LRERFKEVAKKFKGKLLFVVVDADDFGRHLEYFGLKEEDLPVIAIINL 77 (103)
T ss_pred HHHHHHHHHHHhCCeEEEEEEchHhhHHHHHHcCCChhhCCEEEEEec
Confidence 567889999999877899999999999999999997 6777666543
No 14
>cd02989 Phd_like_TxnDC9 Phosducin (Phd)-like family, Thioredoxin (TRX) domain containing protein 9 (TxnDC9) subfamily; composed of predominantly uncharacterized eukaryotic proteins, containing a TRX-like domain without the redox active CXXC motif. The gene name for the human protein is TxnDC9. The two characterized members are described as Phd-like proteins, PLP1 of Saccharomyces cerevisiae and PhLP3 of Dictyostelium discoideum. Gene disruption experiments show that both PLP1 and PhLP3 are non-essential proteins. Unlike Phd and most Phd-like proteins, members of this group do not contain the Phd N-terminal helical domain which is implicated in binding to the G protein betagamma subunit.
Probab=93.31 E-value=0.15 Score=34.91 Aligned_cols=50 Identities=20% Similarity=0.223 Sum_probs=40.7
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCcee
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHI 52 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm 52 (104)
.|+.+|..++++..+ ..+|-+|+++.|+..+-|.+..=+|++||.+++=+
T Consensus 39 ~~~p~l~~la~~~~~-i~f~~Vd~~~~~~l~~~~~v~~vPt~l~fk~G~~v 88 (113)
T cd02989 39 IMDKHLEILAKKHLE-TKFIKVNAEKAPFLVEKLNIKVLPTVILFKNGKTV 88 (113)
T ss_pred HHHHHHHHHHHHcCC-CEEEEEEcccCHHHHHHCCCccCCEEEEEECCEEE
Confidence 367788888887766 57899999999999998998776688888888643
No 15
>cd02947 TRX_family TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox state of target proteins via the reversible oxidation of an active site dithiol, present in a CXXC motif, partially exposed at the protein's surface. TRX reduces protein disulfide bonds, resulting in a disulfide bond at its active site. Oxidized TRX is converted to the active form by TRX reductase, using reducing equivalents derived from either NADPH or ferredoxins. By altering their redox state, TRX regulates the functions of at least 30 target proteins, some of which are enzymes and transcription factors. It also plays an important role in the defense against oxidative stress by directly reducing hydrogen peroxide and certain radicals, and by serving as a reductant for peroxiredoxins. At least two major types of functio
Probab=92.67 E-value=0.67 Score=27.43 Aligned_cols=48 Identities=27% Similarity=0.385 Sum_probs=36.8
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
++.+.|.+++.+ .+-..++.+|.++.+++.+-|.+...+|+.+|-+++
T Consensus 27 ~~~~~~~~~~~~-~~~~~~~~i~~~~~~~~~~~~~v~~~P~~~~~~~g~ 74 (93)
T cd02947 27 AIAPVLEELAEE-YPKVKFVKVDVDENPELAEEYGVRSIPTFLFFKNGK 74 (93)
T ss_pred HhhHHHHHHHHH-CCCceEEEEECCCChhHHHhcCcccccEEEEEECCE
Confidence 456788888887 566778999999999999999997666655554555
No 16
>TIGR01126 pdi_dom protein disulfide-isomerase domain. This model describes a domain of eukaryotic protein disulfide isomerases, generally found in two copies. The high cutoff for total score reflects the expectation of finding both copies. The domain is similar to thioredoxin but the redox-active disulfide region motif is APWCGHCK.
Probab=92.03 E-value=0.3 Score=30.57 Aligned_cols=48 Identities=21% Similarity=0.299 Sum_probs=37.4
Q ss_pred chHHHHHhHHhhhc--ceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 3 MDEVLSSVAETIKN--FAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 3 mDe~L~~~a~~v~~--fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
+...|.+++...+. -..++.+|.++-|++.+-|.+...+|++||-.|+
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~i~~~P~~~~~~~~~ 80 (102)
T TIGR01126 31 LAPEYEKLAKELKGDPDIVLAKVDATAEKDLASRFGVSGFPTIKFFPKGK 80 (102)
T ss_pred hChHHHHHHHHhccCCceEEEEEEccchHHHHHhCCCCcCCEEEEecCCC
Confidence 45677888887775 5678999999999999999998878865555443
No 17
>TIGR01068 thioredoxin thioredoxin. Several proteins, such as protein disulfide isomerase, have two or more copies of a domain closely related to thioredoxin. This model is designed to recognize authentic thioredoxin, a small protein that should be hit exactly once by this model.
Probab=91.96 E-value=1.5 Score=27.16 Aligned_cols=68 Identities=18% Similarity=0.365 Sum_probs=45.8
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHH
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVE 79 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie 79 (104)
++.+.|.+++++..+-..++.+|.++-+.+.+-|.+..-+|++|| ++... +.-..|. .+.+++.+.++
T Consensus 31 ~~~~~l~~~~~~~~~~~~~~~vd~~~~~~~~~~~~v~~~P~~~~~-~~g~~-~~~~~g~--------~~~~~l~~~l~ 98 (101)
T TIGR01068 31 MIAPILEELAKEYEGKVKFVKLNVDENPDIAAKYGIRSIPTLLLF-KNGKE-VDRSVGA--------LPKAALKQLIN 98 (101)
T ss_pred HhCHHHHHHHHHhcCCeEEEEEECCCCHHHHHHcCCCcCCEEEEE-eCCcE-eeeecCC--------CCHHHHHHHHH
Confidence 355678888888876688899999999998888888766665455 54322 2222332 24566666665
No 18
>cd03001 PDI_a_P5 PDIa family, P5 subfamily; composed of eukaryotic proteins similar to human P5, a PDI-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. Some members of this subfamily are P5-like proteins containing only one redox active TRX domain.
Probab=91.39 E-value=0.58 Score=29.61 Aligned_cols=54 Identities=17% Similarity=0.157 Sum_probs=40.5
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEec
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDL 56 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~ 56 (104)
+-..+.+++++.+.-..++.+|.++-++..+-|.+...+|+++|-.+++...++
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~id~~~~~~~~~~~~i~~~P~~~~~~~~~~~~~~~ 89 (103)
T cd03001 36 LAPEWKKAAKALKGIVKVGAVDADVHQSLAQQYGVRGFPTIKVFGAGKNSPQDY 89 (103)
T ss_pred HhHHHHHHHHHhcCCceEEEEECcchHHHHHHCCCCccCEEEEECCCCcceeec
Confidence 345677888888777888999999999999999998888876665444544444
No 19
>cd03002 PDI_a_MPD1_like PDI family, MPD1-like subfamily; composed of eukaryotic proteins similar to Saccharomyces cerevisiae MPD1 protein, which contains a single redox active TRX domain located at the N-terminus, and an ER retention signal at the C-terminus indicative of an ER-resident protein. MPD1 has been shown to suppress the maturation defect of carboxypeptidase Y caused by deletion of the yeast PDI1 gene. Other characterized members of this subfamily include the Aspergillus niger prpA protein and Giardia PDI-1. PrpA is non-essential to strain viability, however, its transcript level is induced by heterologous protein expression suggesting a possible role in oxidative protein folding during high protein production. Giardia PDI-1 has the ability to refold scrambled RNase and exhibits transglutaminase activity.
Probab=90.74 E-value=0.5 Score=30.40 Aligned_cols=48 Identities=17% Similarity=0.189 Sum_probs=38.2
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCC--cccccccccccccceEEEEEeCc
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISE--VPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~e--Vpdfn~myeL~dP~tvMFFfrnk 50 (104)
+...+.+++++...-..++.+|.++ .+++.+-|.+..-+|++||-+++
T Consensus 36 ~~~~~~~~a~~~~~~~~~~~v~~~~~~~~~~~~~~~i~~~Pt~~~~~~~~ 85 (109)
T cd03002 36 LKPEYAKAAKELDGLVQVAAVDCDEDKNKPLCGKYGVQGFPTLKVFRPPK 85 (109)
T ss_pred hChHHHHHHHHhcCCceEEEEecCccccHHHHHHcCCCcCCEEEEEeCCC
Confidence 4567788888888777888999988 88888889998888876665554
No 20
>cd03004 PDI_a_ERdj5_C PDIa family, C-terminal ERdj5 subfamily; ERdj5, also known as JPDI and macrothioredoxin, is a protein containing an N-terminal DnaJ domain and four redox active TRX domains. This subfamily is composed of the three TRX domains located at the C-terminal half of the protein. ERdj5 is a ubiquitous protein localized in the endoplasmic reticulum (ER) and is abundant in secretory cells. It's transcription is induced during ER stress. It interacts with BiP through its DnaJ domain in an ATP-dependent manner. BiP, an ER-resident member of the Hsp70 chaperone family, functions in ER-associated degradation and protein translocation. Also included in the alignment is the single complete TRX domain of an uncharacterized protein from Tetraodon nigroviridis, which also contains a DnaJ domain at its N-terminus.
Probab=90.52 E-value=0.8 Score=29.50 Aligned_cols=47 Identities=15% Similarity=0.112 Sum_probs=37.5
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeC
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRN 49 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrn 49 (104)
|...+.+++++.+.-..++.+|.++-++..+-|.+..-+|+++|-.+
T Consensus 37 ~~p~~~~~~~~~~~~~~~~~vd~~~~~~~~~~~~i~~~Pt~~~~~~g 83 (104)
T cd03004 37 LLPELRKAARALKGKVKVGSVDCQKYESLCQQANIRAYPTIRLYPGN 83 (104)
T ss_pred HHHHHHHHHHHhcCCcEEEEEECCchHHHHHHcCCCcccEEEEEcCC
Confidence 55677888888877788899999999999888899876786666443
No 21
>cd02961 PDI_a_family Protein Disulfide Isomerase (PDIa) family, redox active TRX domains; composed of eukaryotic proteins involved in oxidative protein folding in the endoplasmic reticulum (ER) by acting as catalysts and folding assistants. Members of this family include PDI and PDI-related proteins like ERp72, ERp57 (or ERp60), ERp44, P5, PDIR, ERp46 and the transmembrane PDIs. PDI, ERp57, ERp72, P5, PDIR and ERp46 are all oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. These proteins usually contain multiple copies of a redox active TRX (a) domain containing a CXXC motif, and may also contain one or more redox inactive TRX-like (b) domains. Only one a domain is required for the oxidase function but multiple copies
Probab=90.14 E-value=1 Score=27.37 Aligned_cols=47 Identities=19% Similarity=0.255 Sum_probs=37.0
Q ss_pred chHHHHHhHHhh--hcceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 3 MDEVLSSVAETI--KNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 3 mDe~L~~~a~~v--~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
+...+.++++.+ ..-..++.+|.++-+.+.+-|.+..-+|+ ++|++.
T Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~i~~~Pt~-~~~~~~ 81 (101)
T cd02961 33 LAPEYEKLAKELKGDGKVVVAKVDCTANNDLCSEYGVRGYPTI-KLFPNG 81 (101)
T ss_pred hhHHHHHHHHHhccCCceEEEEeeccchHHHHHhCCCCCCCEE-EEEcCC
Confidence 456788889888 47788899999999999999999876674 555544
No 22
>cd02949 TRX_NTR TRX domain, novel NADPH thioredoxin reductase (NTR) family; composed of fusion proteins found only in oxygenic photosynthetic organisms containing both TRX and NTR domains. The TRX domain functions as a protein disulfide reductase via the reversible oxidation of an active center dithiol present in a CXXC motif, while the NTR domain functions as a reductant to oxidized TRX. The fusion protein is bifunctional, showing both TRX and NTR activities, but it is not an independent NTR/TRX system. In plants, the protein is found exclusively in shoots and mature leaves and is localized in the chloroplast. It is involved in plant protection against oxidative stress.
Probab=89.07 E-value=1.5 Score=28.28 Aligned_cols=66 Identities=21% Similarity=0.403 Sum_probs=42.5
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIV 78 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDii 78 (104)
+...|.+++++.+.=..++.+|+++-|++.+-|.+..-+|++|| ++... ++-..| ..++++|.+.+
T Consensus 31 ~~~~l~~l~~~~~~~v~~~~id~d~~~~l~~~~~v~~vPt~~i~-~~g~~-v~~~~g--------~~~~~~~~~~l 96 (97)
T cd02949 31 LKPILNKVIDEFDGAVHFVEIDIDEDQEIAEAAGIMGTPTVQFF-KDKEL-VKEISG--------VKMKSEYREFI 96 (97)
T ss_pred HHHHHHHHHHHhCCceEEEEEECCCCHHHHHHCCCeeccEEEEE-ECCeE-EEEEeC--------CccHHHHHHhh
Confidence 44567777777765456789999999999999988765565444 55443 333333 33446666554
No 23
>cd02957 Phd_like Phosducin (Phd)-like family; composed of Phd and Phd-like proteins (PhLP), characterized as cytosolic regulators of G protein functions. Phd and PhLPs specifically bind G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane and impeding G protein-mediated signal transduction by inhibiting the formation of a functional G protein trimer (G protein alphabetagamma). Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-te
Probab=88.97 E-value=0.96 Score=30.26 Aligned_cols=50 Identities=10% Similarity=0.129 Sum_probs=38.1
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeE
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIM 53 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~ 53 (104)
.|+.+|.++|++..+ ..++-||+++. +..+-|++..=+|+++|.+++-+.
T Consensus 41 ~l~~~l~~la~~~~~-v~f~~vd~~~~-~l~~~~~i~~~Pt~~~f~~G~~v~ 90 (113)
T cd02957 41 ILDSHLEELAAKYPE-TKFVKINAEKA-FLVNYLDIKVLPTLLVYKNGELID 90 (113)
T ss_pred HHHHHHHHHHHHCCC-cEEEEEEchhh-HHHHhcCCCcCCEEEEEECCEEEE
Confidence 367788888888765 45789999888 888888886655888887776543
No 24
>cd02962 TMX2 TMX2 family; composed of proteins similar to human TMX2, a 372-amino acid TRX-related transmembrane protein, identified and characterized through the cloning of its cDNA from a human fetal library. It contains a TRX domain but the redox active CXXC motif is replaced with SXXC. Sequence analysis predicts that TMX2 may be a Type I membrane protein, with its C-terminal half protruding on the luminal side of the endoplasmic reticulum (ER). In addition to the TRX domain, transmembrane region and ER-retention signal, TMX2 also contains a Myb DNA-binding domain repeat signature and a dileucine motif in the tail.
Probab=88.81 E-value=1.9 Score=31.64 Aligned_cols=52 Identities=15% Similarity=0.273 Sum_probs=38.9
Q ss_pred chHHHHHhHHhhhc-ceEEEEEeCCCcccccccccccc------cceEEEEEeCceeEE
Q 034085 3 MDEVLSSVAETIKN-FAVIYLVDISEVPDFNTMYELYD------PSTVMFFFRNKHIMI 54 (104)
Q Consensus 3 mDe~L~~~a~~v~~-fa~IY~vDi~eVpdfn~myeL~d------P~tvMFFfrnkHm~v 54 (104)
|..++.+++++.+. =..++.||+++-|+..+-|.+.. -+|+++|-.++.+.=
T Consensus 65 l~p~l~~la~~~~~~~v~f~~VDvd~~~~la~~~~V~~~~~v~~~PT~ilf~~Gk~v~r 123 (152)
T cd02962 65 FAPVFAELSLKYNNNNLKFGKIDIGRFPNVAEKFRVSTSPLSKQLPTIILFQGGKEVAR 123 (152)
T ss_pred HHHHHHHHHHHcccCCeEEEEEECCCCHHHHHHcCceecCCcCCCCEEEEEECCEEEEE
Confidence 55678888887653 26789999999999999999865 347777766666543
No 25
>cd02963 TRX_DnaJ TRX domain, DnaJ domain containing protein family; composed of uncharacterized proteins of about 500-800 amino acids, containing an N-terminal DnaJ domain followed by one redox active TRX domain. DnaJ is a member of the 40 kDa heat-shock protein (Hsp40) family of molecular chaperones, which regulate the activity of Hsp70s. TRX is involved in the redox regulation of many protein substrates through the reduction of disulfide bonds. TRX has been implicated to catalyse the reduction of Hsp33, a chaperone holdase that binds to unfolded protein intermediates. The presence of DnaJ and TRX domains in members of this family suggests that they could be involved in a redox-regulated chaperone network.
Probab=88.77 E-value=1.2 Score=29.92 Aligned_cols=57 Identities=9% Similarity=0.047 Sum_probs=39.2
Q ss_pred chHHHHHhHHhhhcc-eEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCC
Q 034085 3 MDEVLSSVAETIKNF-AVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNN 61 (104)
Q Consensus 3 mDe~L~~~a~~v~~f-a~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnn 61 (104)
+..++.+++++.+.- ..++-||+++-++..+-|.+..-+|+++| ++.. .+...+|..
T Consensus 42 ~~p~~~~l~~~~~~~~v~~~~vd~d~~~~l~~~~~V~~~Pt~~i~-~~g~-~~~~~~G~~ 99 (111)
T cd02963 42 IEPVWKEVIQELEPLGVGIATVNAGHERRLARKLGAHSVPAIVGI-INGQ-VTFYHDSSF 99 (111)
T ss_pred hhHHHHHHHHHHHhcCceEEEEeccccHHHHHHcCCccCCEEEEE-ECCE-EEEEecCCC
Confidence 445677788877642 56789999999999999999765676566 4443 355555543
No 26
>cd03003 PDI_a_ERdj5_N PDIa family, N-terminal ERdj5 subfamily; ERdj5, also known as JPDI and macrothioredoxin, is a protein containing an N-terminal DnaJ domain and four redox active TRX domains. This subfamily is comprised of the first TRX domain of ERdj5 located after the DnaJ domain at the N-terminal half of the protein. ERdj5 is a ubiquitous protein localized in the endoplasmic reticulum (ER) and is abundant in secretory cells. It's transcription is induced during ER stress. It interacts with BiP through its DnaJ domain in an ATP-dependent manner. BiP, an ER-resident member of the Hsp70 chaperone family, functions in ER-associated degradation and protein translocation.
Probab=88.37 E-value=1.3 Score=28.59 Aligned_cols=47 Identities=9% Similarity=0.046 Sum_probs=36.7
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeC
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRN 49 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrn 49 (104)
|-..+.++|++.+.-..++-||.++-|+..+-|.+..=+|+++|-++
T Consensus 36 ~~p~~~~~a~~~~~~~~~~~vd~~~~~~~~~~~~v~~~Pt~~~~~~g 82 (101)
T cd03003 36 LAPTWREFAKEMDGVIRIGAVNCGDDRMLCRSQGVNSYPSLYVFPSG 82 (101)
T ss_pred hHHHHHHHHHHhcCceEEEEEeCCccHHHHHHcCCCccCEEEEEcCC
Confidence 34567788888887788899999999999888898776776666433
No 27
>KOG0910 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=88.28 E-value=1.2 Score=33.69 Aligned_cols=68 Identities=18% Similarity=0.364 Sum_probs=51.9
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
|+.+|.+++.+.++--..|.+|+++=|++-.=|++.-=+|++-|=++.-+ .++.++.+. ..+...|+.
T Consensus 79 l~P~l~~~~~~~~g~~k~~kvdtD~~~ela~~Y~I~avPtvlvfknGe~~---------d~~vG~~~~-~~l~~~i~k 146 (150)
T KOG0910|consen 79 LGPILEELVSEYAGKFKLYKVDTDEHPELAEDYEISAVPTVLVFKNGEKV---------DRFVGAVPK-EQLRSLIKK 146 (150)
T ss_pred hhHHHHHHHHhhcCeEEEEEEccccccchHhhcceeeeeEEEEEECCEEe---------eeecccCCH-HHHHHHHHH
Confidence 67899999999999999999999999999999999665566777665544 456666554 345555543
No 28
>TIGR02187 GlrX_arch Glutaredoxin-like domain protein. This family of archaeal proteins contains a C-terminal domain with homology to bacterial and eukaryotic glutaredoxins, including a CPYC motif. There is an N-terminal domain which has even more distant homology to glutaredoxins. The name "glutaredoxin" may be inappropriate in the sense of working in tandem with glutathione and glutathione reductase which may not be present in the archaea. The overall domain structure appears to be related to bacterial alkylhydroperoxide reductases, but the homology may be distant enough that the function of this family is wholly different.
Probab=86.93 E-value=4.4 Score=30.22 Aligned_cols=72 Identities=18% Similarity=0.231 Sum_probs=46.7
Q ss_pred chHHHHHhHHhhhcce-EEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFA-VIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETV 81 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa-~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~i 81 (104)
|..+|..++++..+.. .++-+|.++-|+..+-|.+.--+|+++|=+++... -++.+ ..+++++...|+.+
T Consensus 40 ~~p~l~~la~~~~~~~i~~v~vd~~~~~~l~~~~~V~~~Pt~~~f~~g~~~~--------~~~~G-~~~~~~l~~~i~~~ 110 (215)
T TIGR02187 40 TEQLLEELSEVSPKLKLEIYDFDTPEDKEEAEKYGVERVPTTIILEEGKDGG--------IRYTG-IPAGYEFAALIEDI 110 (215)
T ss_pred HHHHHHHHHhhCCCceEEEEecCCcccHHHHHHcCCCccCEEEEEeCCeeeE--------EEEee-cCCHHHHHHHHHHH
Confidence 5567777777665442 24445555999999999998878987764333211 01222 45668888999888
Q ss_pred hh
Q 034085 82 YR 83 (104)
Q Consensus 82 yr 83 (104)
+.
T Consensus 111 ~~ 112 (215)
T TIGR02187 111 VR 112 (215)
T ss_pred HH
Confidence 63
No 29
>cd02996 PDI_a_ERp44 PDIa family, endoplasmic reticulum protein 44 (ERp44) subfamily; ERp44 is an ER-resident protein, induced during stress, involved in thiol-mediated ER retention. It contains an N-terminal TRX domain, similar to that of PDIa, with a CXFS motif followed by two redox inactive TRX-like domains, homologous to the b and b' domains of PDI. The CXFS motif in the N-terminal domain allows ERp44 to form stable reversible mixed disulfides with its substrates. Through this activity, ERp44 mediates the ER localization of Ero1alpha, a protein that oxidizes protein disulfide isomerases into their active form. ERp44 also prevents the secretion of unassembled cargo protein with unpaired cysteines. It also modulates the activity of inositol 1,4,5-triphosphate type I receptor (IP3R1), an intracellular channel protein that mediates calcium release from the ER to the cytosol.
Probab=86.87 E-value=2.1 Score=27.99 Aligned_cols=58 Identities=19% Similarity=0.214 Sum_probs=39.2
Q ss_pred chHHHHHhHHhhhc------ceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCC
Q 034085 3 MDEVLSSVAETIKN------FAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNN 61 (104)
Q Consensus 3 mDe~L~~~a~~v~~------fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnn 61 (104)
+...+.++|.++++ -..++-+|.++-++..+-|.+..=+|+.||-.++.. ..-.+|..
T Consensus 36 ~~p~~~~~a~~~~~~~~~~~~~~~~~vd~d~~~~l~~~~~v~~~Ptl~~~~~g~~~-~~~~~g~~ 99 (108)
T cd02996 36 LHPIFEEAAAKIKEEFPDAGKVVWGKVDCDKESDIADRYRINKYPTLKLFRNGMMM-KREYRGQR 99 (108)
T ss_pred hHHHHHHHHHHHhhccCCCCcEEEEEEECCCCHHHHHhCCCCcCCEEEEEeCCcCc-ceecCCCC
Confidence 45567777776643 256788999999999999999765576666544433 35555544
No 30
>PTZ00443 Thioredoxin domain-containing protein; Provisional
Probab=85.02 E-value=5.8 Score=30.98 Aligned_cols=74 Identities=12% Similarity=0.229 Sum_probs=50.7
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHHHh
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETVY 82 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~iy 82 (104)
|-..+.+++++.+.-..++.+|.++-|+..+-|.+..=+|+++|-+++. ++.-.|. .+++++.+-++.-|
T Consensus 70 ~~P~~e~la~~~~~~v~~~~VD~~~~~~l~~~~~I~~~PTl~~f~~G~~--v~~~~G~--------~s~e~L~~fi~~~~ 139 (224)
T PTZ00443 70 MAPAWERLAKALKGQVNVADLDATRALNLAKRFAIKGYPTLLLFDKGKM--YQYEGGD--------RSTEKLAAFALGDF 139 (224)
T ss_pred HHHHHHHHHHHcCCCeEEEEecCcccHHHHHHcCCCcCCEEEEEECCEE--EEeeCCC--------CCHHHHHHHHHHHH
Confidence 3456777888887767788899999999999999977667666654443 3443332 35567777777666
Q ss_pred hccc
Q 034085 83 RGAR 86 (104)
Q Consensus 83 rgA~ 86 (104)
..+.
T Consensus 140 ~~~~ 143 (224)
T PTZ00443 140 KKAL 143 (224)
T ss_pred Hhhc
Confidence 5553
No 31
>cd03005 PDI_a_ERp46 PDIa family, endoplasmic reticulum protein 46 (ERp46) subfamily; ERp46 is an ER-resident protein containing three redox active TRX domains. Yeast complementation studies show that ERp46 can substitute for protein disulfide isomerase (PDI) function in vivo. It has been detected in many tissues, however, transcript and protein levels do not correlate in all tissues, suggesting regulation at a posttranscriptional level. An identical protein, named endoPDI, has been identified as an endothelial PDI that is highly expressed in the endothelium of tumors and hypoxic lesions. It has a protective effect on cells exposed to hypoxia.
Probab=84.47 E-value=4 Score=25.65 Aligned_cols=46 Identities=15% Similarity=0.313 Sum_probs=34.4
Q ss_pred chHHHHHhHHhhhc---ceEEEEEeCCCcccccccccccccceEEEEEeC
Q 034085 3 MDEVLSSVAETIKN---FAVIYLVDISEVPDFNTMYELYDPSTVMFFFRN 49 (104)
Q Consensus 3 mDe~L~~~a~~v~~---fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrn 49 (104)
+...+.+++++.+. -..++.+|.++-++..+-|.+..-+|+++| ++
T Consensus 34 ~~p~~~~~~~~~~~~~~~~~~~~vd~~~~~~~~~~~~v~~~Pt~~~~-~~ 82 (102)
T cd03005 34 LAPTWEQLAKKFNNENPSVKIAKVDCTQHRELCSEFQVRGYPTLLLF-KD 82 (102)
T ss_pred hCHHHHHHHHHHhccCCcEEEEEEECCCChhhHhhcCCCcCCEEEEE-eC
Confidence 44567788888765 567789999998888888888765576555 44
No 32
>cd02956 ybbN ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria.
Probab=84.32 E-value=4.8 Score=25.36 Aligned_cols=45 Identities=20% Similarity=0.270 Sum_probs=35.1
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEE
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFF 47 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFf 47 (104)
+...|.++++..+.-..++.+|.++-+++.+-|.+..-+|+++|-
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~vd~~~~~~l~~~~~i~~~Pt~~~~~ 74 (96)
T cd02956 30 LLPLLERLAEEYQGQFVLAKVNCDAQPQIAQQFGVQALPTVYLFA 74 (96)
T ss_pred HHHHHHHHHHHhCCcEEEEEEeccCCHHHHHHcCCCCCCEEEEEe
Confidence 456678888877665678999999999999999997766655553
No 33
>cd02995 PDI_a_PDI_a'_C PDIa family, C-terminal TRX domain (a') subfamily; composed of the C-terminal redox active a' domains of PDI, ERp72, ERp57 (or ERp60) and EFP1. PDI, ERp72 and ERp57 are endoplasmic reticulum (ER)-resident eukaryotic proteins involved in oxidative protein folding. They are oxidases, catalyzing the formation of disulfide bonds of newly synthesized polypeptides in the ER. They also exhibit reductase activity in acting as isomerases to correct any non-native disulfide bonds, as well as chaperone activity to prevent protein aggregation and facilitate the folding of newly synthesized proteins. PDI and ERp57 have the abb'a' domain structure (where a and a' are redox active TRX domains while b and b' are redox inactive TRX-like domains). PDI also contains an acidic region (c domain) after the a' domain that is absent in ERp57. ERp72 has an additional a domain at the N-terminus (a"abb'a' domain structure). ERp57 interacts with the lectin chaperones, calnexin and calreticu
Probab=83.01 E-value=4 Score=25.55 Aligned_cols=57 Identities=19% Similarity=0.206 Sum_probs=36.2
Q ss_pred cchHHHHHhHHhhhcc--eEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCC
Q 034085 2 QMDEVLSSVAETIKNF--AVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTG 59 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~f--a~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTg 59 (104)
+|...+.++++.+++. ..++.+|.++- +....+.+..-+|+++|-+++.-.....+|
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~id~~~~-~~~~~~~~~~~Pt~~~~~~~~~~~~~~~~g 93 (104)
T cd02995 35 ALAPIYEELAEKLKGDDNVVIAKMDATAN-DVPSEFVVDGFPTILFFPAGDKSNPIKYEG 93 (104)
T ss_pred HHhhHHHHHHHHhcCCCCEEEEEEeCcch-hhhhhccCCCCCEEEEEcCCCcCCceEccC
Confidence 4667888899888774 55677887764 344555666667777776665333333444
No 34
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=82.30 E-value=8.9 Score=25.59 Aligned_cols=71 Identities=21% Similarity=0.266 Sum_probs=40.7
Q ss_pred HhHHhhhcceEEEEEeCCC-------------cccccccccccccceEEEEEeCc-eeEEecCCCCCceEEeecCChhHH
Q 034085 9 SVAETIKNFAVIYLVDISE-------------VPDFNTMYELYDPSTVMFFFRNK-HIMIDLGTGNNNKINWALKDKQEF 74 (104)
Q Consensus 9 ~~a~~v~~fa~IY~vDi~e-------------Vpdfn~myeL~dP~tvMFFfrnk-Hm~vD~GTgnnnKin~~~~~kQef 74 (104)
.+++.+++-..++.+|+++ .+++..-|.+.--+|++|| ++. --.+. ++.+. .++++|
T Consensus 41 ~~~~~~~~~~~~~~i~~d~~~~~~~~~~~~~~~~~l~~~~~v~~~Pt~~~~-~~~gg~~~~-------~~~G~-~~~~~~ 111 (125)
T cd02951 41 AVQAYIRAHFVVVYINIDGDKEVTDFDGEALSEKELARKYRVRFTPTVIFL-DPEGGKEIA-------RLPGY-LPPDEF 111 (125)
T ss_pred HHHHHHHhheEEEEEEccCCceeeccCCCCccHHHHHHHcCCccccEEEEE-cCCCCceeE-------EecCC-CCHHHH
Confidence 4444454434466778765 3566677777655564444 321 11111 23333 356899
Q ss_pred HHHHHHHhhccccC
Q 034085 75 IDIVETVYRGARKG 88 (104)
Q Consensus 75 IDiie~iyrgA~kG 88 (104)
..+++.+..++-||
T Consensus 112 ~~~l~~~~~~~~~~ 125 (125)
T cd02951 112 LAYLEYVQEKAYKK 125 (125)
T ss_pred HHHHHHHHhhhhcC
Confidence 99999988877654
No 35
>TIGR01295 PedC_BrcD bacteriocin transport accessory protein, putative. This model describes a small family of proteins believed to aid in the export of various class II bacteriocins, which are ribosomally-synthesized, non-lantibiotic bacterial peptide antibiotics. Members of this family are found in operons for pediocin PA-1 from Pediococcus acidilactici and brochocin-C from Brochothrix campestris.
Probab=82.09 E-value=5.6 Score=27.69 Aligned_cols=65 Identities=23% Similarity=0.370 Sum_probs=40.5
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCc-----------cccccccccc----ccceEEEEEeCceeEEecCCCCCceEEee
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEV-----------PDFNTMYELY----DPSTVMFFFRNKHIMIDLGTGNNNKINWA 67 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eV-----------pdfn~myeL~----dP~tvMFFfrnkHm~vD~GTgnnnKin~~ 67 (104)
|.-+|.+++++ .+ +.||-||+++- ++|-+-|++. -.+|+++|=++|.+..=.| .
T Consensus 41 ~~P~l~~~~~~-~~-~~~y~vdvd~~~~~~~~~~~~~~~~~~~~~i~~~i~~~PT~v~~k~Gk~v~~~~G---------~ 109 (122)
T TIGR01295 41 FSGTLSGVVAQ-TK-APIYYIDSENNGSFEMSSLNDLTAFRSRFGIPTSFMGTPTFVHITDGKQVSVRCG---------S 109 (122)
T ss_pred HhHHHHHHHHh-cC-CcEEEEECCCccCcCcccHHHHHHHHHHcCCcccCCCCCEEEEEeCCeEEEEEeC---------C
Confidence 45677888886 33 56999999843 3444555432 3788888877776653323 2
Q ss_pred cCChhHHHHHH
Q 034085 68 LKDKQEFIDIV 78 (104)
Q Consensus 68 ~~~kQefIDii 78 (104)
..+++++.++.
T Consensus 110 ~~~~~~l~~~~ 120 (122)
T TIGR01295 110 STTAQELQDIA 120 (122)
T ss_pred CCCHHHHHHHh
Confidence 44567766654
No 36
>KOG0907 consensus Thioredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=81.67 E-value=6.2 Score=27.39 Aligned_cols=43 Identities=19% Similarity=0.394 Sum_probs=34.5
Q ss_pred HHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 6 VLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 6 ~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
.+.++|.+-.+ |.++-||++|.+++-+=|++.-=+|.+ |||+.
T Consensus 42 ~~~~La~~y~~-v~Flkvdvde~~~~~~~~~V~~~PTf~-f~k~g 84 (106)
T KOG0907|consen 42 KFEKLAEKYPD-VVFLKVDVDELEEVAKEFNVKAMPTFV-FYKGG 84 (106)
T ss_pred HHHHHHHHCCC-CEEEEEecccCHhHHHhcCceEeeEEE-EEECC
Confidence 56788999999 999999999999999988887666754 44443
No 37
>cd02985 TRX_CDSP32 TRX family, chloroplastic drought-induced stress protein of 32 kD (CDSP32); CDSP32 is composed of two TRX domains, a C-terminal TRX domain which contains a redox active CXXC motif and an N-terminal TRX-like domain which contains an SXXS sequence instead of the redox active motif. CDSP32 is a stress-inducible TRX, i.e., it acts as a TRX by reducing protein disulfides and is induced by environmental and oxidative stress conditions. It plays a critical role in plastid defense against oxidative damage, a role related to its function as a physiological electron donor to BAS1, a plastidic 2-cys peroxiredoxin. Plants lacking CDSP32 exhibit decreased photosystem II photochemical efficiencies and chlorophyll retention compared to WT controls, as well as an increased proportion of BAS1 in its overoxidized monomeric form.
Probab=81.37 E-value=3.1 Score=27.41 Aligned_cols=54 Identities=15% Similarity=0.279 Sum_probs=35.7
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCc---ccccccccccccceEEEEEeCceeEEecCCC
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEV---PDFNTMYELYDPSTVMFFFRNKHIMIDLGTG 59 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eV---pdfn~myeL~dP~tvMFFfrnkHm~vD~GTg 59 (104)
|...|.+++++..+ ..++.+|+++- +++.+-|.+.-.+|++|| ++.-+ ++--+|
T Consensus 33 ~~p~l~~la~~~~~-v~~~~vd~d~~~~~~~l~~~~~V~~~Pt~~~~-~~G~~-v~~~~G 89 (103)
T cd02985 33 IYPTMVKLSRTCND-VVFLLVNGDENDSTMELCRREKIIEVPHFLFY-KDGEK-IHEEEG 89 (103)
T ss_pred HhHHHHHHHHHCCC-CEEEEEECCCChHHHHHHHHcCCCcCCEEEEE-eCCeE-EEEEeC
Confidence 45677888887744 46788998875 478888888766686555 55433 343333
No 38
>cd02999 PDI_a_ERp44_like PDIa family, endoplasmic reticulum protein 44 (ERp44)-like subfamily; composed of uncharacterized PDI-like eukaryotic proteins containing only one redox active TRX (a) domain with a CXXS motif, similar to ERp44. CXXS is still a redox active motif; however, the mixed disulfide formed with the substrate is more stable than those formed by CXXC motif proteins. PDI-related proteins are usually involved in the oxidative protein folding in the ER by acting as catalysts and folding assistants. ERp44 is involved in thiol-mediated retention in the ER.
Probab=78.91 E-value=3.5 Score=27.33 Aligned_cols=46 Identities=11% Similarity=0.250 Sum_probs=33.3
Q ss_pred chHHHHHhHHhhhcceEEEEEeCC-CcccccccccccccceEEEEEeCc
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDIS-EVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~-eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
|--.|.+++++.+++. ++.||.+ +-|+..+-|.+..=+|+++| ++.
T Consensus 36 ~~p~l~~la~~~~~~~-~~~vd~~~~~~~l~~~~~V~~~PT~~lf-~~g 82 (100)
T cd02999 36 FRPHFNALSSMFPQIR-HLAIEESSIKPSLLSRYGVVGFPTILLF-NST 82 (100)
T ss_pred HhHHHHHHHHHhccCc-eEEEECCCCCHHHHHhcCCeecCEEEEE-cCC
Confidence 3456778888887754 5678988 78999999999776676565 443
No 39
>cd03000 PDI_a_TMX3 PDIa family, TMX3 subfamily; composed of eukaryotic proteins similar to human TMX3, a TRX related transmembrane protein containing one redox active TRX domain at the N-terminus and a classical ER retrieval sequence for type I transmembrane proteins at the C-terminus. The TMX3 transcript is found in a variety of tissues with the highest levels detected in skeletal muscle and the heart. In vitro, TMX3 showed oxidase activity albeit slightly lower than that of protein disulfide isomerase.
Probab=77.83 E-value=16 Score=23.62 Aligned_cols=45 Identities=11% Similarity=0.194 Sum_probs=32.3
Q ss_pred HHHHHhHHhhhc---ceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 5 EVLSSVAETIKN---FAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 5 e~L~~~a~~v~~---fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
..|.++++..+. -..++.+|.++-|+..+-|.+..-+|++|| ++.
T Consensus 35 p~l~~l~~~~~~~~~~~~~~~vd~~~~~~~~~~~~I~~~Pt~~l~-~~~ 82 (104)
T cd03000 35 PVWNEVGAELKSSGSPVRVGKLDATAYSSIASEFGVRGYPTIKLL-KGD 82 (104)
T ss_pred hHHHHHHHHHHhcCCcEEEEEEECccCHhHHhhcCCccccEEEEE-cCC
Confidence 356677776643 255678899999999999999776776565 544
No 40
>cd02994 PDI_a_TMX PDIa family, TMX subfamily; composed of proteins similar to the TRX-related human transmembrane protein, TMX. TMX is a type I integral membrane protein; the N-terminal redox active TRX domain is present in the endoplasmic reticulum (ER) lumen while the C-terminus is oriented towards the cytoplasm. It is expressed in many cell types and its active site motif (CPAC) is unique. In vitro, TMX reduces interchain disulfides of insulin and renatures inactive RNase containing incorrect disulfide bonds. The C. elegans homolog, DPY-11, is expressed only in the hypodermis and resides in the cytoplasm. It is required for body and sensory organ morphogeneis. Another uncharacterized TRX-related transmembrane protein, human TMX4, is included in the alignment. The active site sequence of TMX4 is CPSC.
Probab=77.50 E-value=14 Score=23.48 Aligned_cols=44 Identities=11% Similarity=0.181 Sum_probs=32.4
Q ss_pred chHHHHHhHHhhhcc-eEEEEEeCCCcccccccccccccceEEEE
Q 034085 3 MDEVLSSVAETIKNF-AVIYLVDISEVPDFNTMYELYDPSTVMFF 46 (104)
Q Consensus 3 mDe~L~~~a~~v~~f-a~IY~vDi~eVpdfn~myeL~dP~tvMFF 46 (104)
+..++.+++++.+.. ..++.+|.++-|+..+-|.+.--+|+++|
T Consensus 34 ~~p~~~~l~~~~~~~~v~~~~vd~~~~~~~~~~~~i~~~Pt~~~~ 78 (101)
T cd02994 34 LQPEWEEFADWSDDLGINVAKVDVTQEPGLSGRFFVTALPTIYHA 78 (101)
T ss_pred HhHHHHHHHHhhccCCeEEEEEEccCCHhHHHHcCCcccCEEEEe
Confidence 455677777765432 56789999999998888999877776554
No 41
>COG1274 PckA Phosphoenolpyruvate carboxykinase (GTP) [Energy production and conversion]
Probab=77.04 E-value=2 Score=38.78 Aligned_cols=38 Identities=32% Similarity=0.481 Sum_probs=30.7
Q ss_pred EecCCCCCceEEeecCChhHHHHHHHHHhhccccCceeEEccCC
Q 034085 54 IDLGTGNNNKINWALKDKQEFIDIVETVYRGARKGRGLVIAPKD 97 (104)
Q Consensus 54 vD~GTgnnnKin~~~~~kQefIDiie~iyrgA~kGkglV~sP~d 97 (104)
-|-|.-||. .+.||+-+.+..+|||++|||.+-+.|.-
T Consensus 95 ~~agPtnNw------~~p~e~~~~m~~l~~G~MrGrtmyVvpf~ 132 (608)
T COG1274 95 EDAGPTNNW------MDPQEMRSEMNELFRGCMRGRTMYVVPFC 132 (608)
T ss_pred cccCCccCC------CCHHHHHHHHHHHHHhhhcCceEEEEeee
Confidence 345555554 36799999999999999999999988863
No 42
>PRK09381 trxA thioredoxin; Provisional
Probab=76.16 E-value=18 Score=23.34 Aligned_cols=51 Identities=16% Similarity=0.357 Sum_probs=35.6
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEE
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMI 54 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~v 54 (104)
+...|.+++++.+.--.++.+|.+.-|...+-|.+..-+|++|| ++..+.-
T Consensus 39 ~~p~~~~l~~~~~~~~~~~~vd~~~~~~~~~~~~v~~~Pt~~~~-~~G~~~~ 89 (109)
T PRK09381 39 IAPILDEIADEYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLF-KNGEVAA 89 (109)
T ss_pred HhHHHHHHHHHhCCCcEEEEEECCCChhHHHhCCCCcCCEEEEE-eCCeEEE
Confidence 44566777777655456899999999998888888665565444 6655443
No 43
>cd03006 PDI_a_EFP1_N PDIa family, N-terminal EFP1 subfamily; EFP1 is a binding partner protein of thyroid oxidase (ThOX), also called Duox. ThOX proteins are responsible for the generation of hydrogen peroxide, a crucial substrate of thyroperoxidase, which functions to iodinate thyroglobulin and synthesize thyroid hormones. EFP1 was isolated through a yeast two-hybrid method using the EF-hand fragment of dog Duox1 as a bait. It could be one of the partners in the assembly of a multiprotein complex constituting the thyroid hydrogen peroxide generating system. EFP1 contains two TRX domains related to the redox active TRX domains of protein disulfide isomerase (PDI). This subfamily is composed of the N-terminal TRX domain of EFP1, which contains a CXXS sequence in place of the typical CXXC motif, similar to ERp44. The CXXS motif allows the formation of stable mixed disulfides, crucial for the ER-retention function of ERp44.
Probab=76.01 E-value=9.1 Score=26.53 Aligned_cols=49 Identities=4% Similarity=0.026 Sum_probs=36.0
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCccccc-ccccccccceEEEEEeCcee
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFN-TMYELYDPSTVMFFFRNKHI 52 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn-~myeL~dP~tvMFFfrnkHm 52 (104)
|--.+.++|++.+.-+.+.-||.++-++.. +-|.+.-=+|+++| ++.+.
T Consensus 47 l~p~~~~la~~~~~~v~~~~Vd~d~~~~l~~~~~~I~~~PTl~lf-~~g~~ 96 (113)
T cd03006 47 ARQEFEQVAQKLSDQVLFVAINCWWPQGKCRKQKHFFYFPVIHLY-YRSRG 96 (113)
T ss_pred HHHHHHHHHHHhcCCeEEEEEECCCChHHHHHhcCCcccCEEEEE-ECCcc
Confidence 334677888888776788999999998887 57888665687777 44333
No 44
>PHA02278 thioredoxin-like protein
Probab=75.90 E-value=5.4 Score=27.18 Aligned_cols=47 Identities=6% Similarity=0.146 Sum_probs=32.6
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCc----ccccccccccccceEEEEEeC
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEV----PDFNTMYELYDPSTVMFFFRN 49 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eV----pdfn~myeL~dP~tvMFFfrn 49 (104)
|..++.+++++...-+.++-+|+++. |+..+-|++..=+|++||=++
T Consensus 32 m~p~l~~l~~~~~~~~~~~~vdvd~~~~d~~~l~~~~~I~~iPT~i~fk~G 82 (103)
T PHA02278 32 LKSVIPMFQESGDIKKPILTLNLDAEDVDREKAVKLFDIMSTPVLIGYKDG 82 (103)
T ss_pred HHHHHHHHHhhhcCCceEEEEECCccccccHHHHHHCCCccccEEEEEECC
Confidence 45677777776433356899999975 678888998765686666433
No 45
>PTZ00051 thioredoxin; Provisional
Probab=75.75 E-value=10 Score=23.79 Aligned_cols=44 Identities=14% Similarity=0.218 Sum_probs=32.2
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEE
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFF 47 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFf 47 (104)
+...|.+++++..+. .++.+|.++.++..+-|.+..-+|+.+|-
T Consensus 36 ~~~~l~~l~~~~~~~-~~~~vd~~~~~~~~~~~~v~~~Pt~~~~~ 79 (98)
T PTZ00051 36 IAPFYEECSKEYTKM-VFVKVDVDELSEVAEKENITSMPTFKVFK 79 (98)
T ss_pred HhHHHHHHHHHcCCc-EEEEEECcchHHHHHHCCCceeeEEEEEe
Confidence 456777888776653 56889999999998889987645655553
No 46
>cd07034 TPP_PYR_PFOR_IOR-alpha_like Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain, of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit (IOR-alpha), and related proteins, subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. The PYR and PP domains have a common fold, but do not share strong sequence conservation. Th
Probab=74.15 E-value=4.8 Score=28.11 Aligned_cols=31 Identities=26% Similarity=0.039 Sum_probs=28.6
Q ss_pred ceEEeecCChhHHHHHHHHHhhccccCceeE
Q 034085 62 NKINWALKDKQEFIDIVETVYRGARKGRGLV 92 (104)
Q Consensus 62 nKin~~~~~kQefIDiie~iyrgA~kGkglV 92 (104)
.|+.+.+.+.||.-+.++..++-|..|||-|
T Consensus 124 ~~~~~~~~~~~~~~~~~~~A~~~a~~~~~Pv 154 (160)
T cd07034 124 PWPVLAPSSVQEAFDLALEAFELAEKYRLPV 154 (160)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHHhCCCE
Confidence 8999999999999999999999999998744
No 47
>cd02948 TRX_NDPK TRX domain, TRX and NDP-kinase (NDPK) fusion protein family; most members of this group are fusion proteins which contain one redox active TRX domain containing a CXXC motif and three NDPK domains, and are characterized as intermediate chains (ICs) of axonemal outer arm dynein. Dyneins are molecular motors that generate force against microtubules to produce cellular movement, and are divided into two classes: axonemal and cytoplasmic. They are supramolecular complexes consisting of three protein groups classified according to size: dynein heavy, intermediate and light chains. Axonemal dyneins form two structures, the inner and outer arms, which are attached to doublet microtubules throughout the cilia and flagella. The human homolog is the sperm-specific Sptrx-2, presumed to be a component of the human sperm axoneme architecture. Included in this group is another human protein, TRX-like protein 2, a smaller fusion protein containing one TRX and one NDPK domain, which
Probab=72.95 E-value=8.8 Score=25.09 Aligned_cols=46 Identities=11% Similarity=0.188 Sum_probs=32.3
Q ss_pred chHHHHHhHHhhh-cceEEEEEeCCCcccccccccccccceEEEEEeCc
Q 034085 3 MDEVLSSVAETIK-NFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNK 50 (104)
Q Consensus 3 mDe~L~~~a~~v~-~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnk 50 (104)
|-.+|.+++++.+ +...++.+|++ -|+..+-|.+...+|++|| ++.
T Consensus 35 ~~p~l~~~~~~~~~~~~~~~~vd~d-~~~~~~~~~v~~~Pt~~~~-~~g 81 (102)
T cd02948 35 VVSLFKKIKNELGDDLLHFATAEAD-TIDTLKRYRGKCEPTFLFY-KNG 81 (102)
T ss_pred HhHHHHHHHHHcCCCcEEEEEEeCC-CHHHHHHcCCCcCcEEEEE-ECC
Confidence 3456777777765 34568889998 6778888888766686665 443
No 48
>cd02993 PDI_a_APS_reductase PDIa family, 5'-Adenylylsulfate (APS) reductase subfamily; composed of plant-type APS reductases containing a C-terminal redox active TRX domain and an N-terminal reductase domain which is part of a superfamily that includes N type ATP PPases. APS reductase catalyzes the reduction of activated sulfate to sulfite, a key step in the biosynthesis of sulfur-containing metabolites. Sulfate is first activated by ATP sulfurylase, forming APS, which can be phosphorylated to 3'-phosphoadenosine-5'-phosphosulfate (PAPS). Depending on the organism, either APS or PAPS can be used for sulfate reduction. Prokaryotes and fungi use PAPS, whereas plants use both APS and PAPS. Since plant-type APS reductase uses glutathione (GSH) as its electron donor, the C-terminal domain may function like glutaredoxin, a GSH-dependent member of the TRX superfamily. The flow of reducing equivalents goes from GSH - C-terminal TRX domain - N-terminal reductase domain - APS. Plant-type APS red
Probab=72.34 E-value=15 Score=24.26 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=31.0
Q ss_pred cchHHHHHhHHhhhc-ceEEEEEeCCC-ccccc-ccccccccceEEEEE
Q 034085 2 QMDEVLSSVAETIKN-FAVIYLVDISE-VPDFN-TMYELYDPSTVMFFF 47 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~-fa~IY~vDi~e-Vpdfn-~myeL~dP~tvMFFf 47 (104)
+|..++.+++.+.+. =..+..||.++ -.++. +.|.+..-+|++||-
T Consensus 38 ~~~~~~~~la~~~~~~~~~~~~vd~d~~~~~~~~~~~~v~~~Pti~~f~ 86 (109)
T cd02993 38 AMEASYEELAEKLAGSNVKVAKFNADGEQREFAKEELQLKSFPTILFFP 86 (109)
T ss_pred HHhHHHHHHHHHhccCCeEEEEEECCccchhhHHhhcCCCcCCEEEEEc
Confidence 355677788887764 25668889886 45555 367887778865553
No 49
>cd02997 PDI_a_PDIR PDIa family, PDIR subfamily; composed of proteins similar to human PDIR (for Protein Disulfide Isomerase Related). PDIR is composed of three redox active TRX (a) domains and an N-terminal redox inactive TRX-like (b) domain. Similar to PDI, it is involved in oxidative protein folding in the endoplasmic reticulum (ER) through its isomerase and chaperone activities. These activities are lower compared to PDI, probably due to PDIR acting only on a subset of proteins. PDIR is preferentially expressed in cells actively secreting proteins and its expression is induced by stress. Similar to PDI, the isomerase and chaperone activities of PDIR are independent; CXXC mutants lacking isomerase activity retain chaperone activity.
Probab=70.76 E-value=17 Score=22.70 Aligned_cols=48 Identities=21% Similarity=0.299 Sum_probs=30.1
Q ss_pred chHHHHHhHHhhhc--ceEEEEEeCCC--cccccccccccccceEEEEEeCce
Q 034085 3 MDEVLSSVAETIKN--FAVIYLVDISE--VPDFNTMYELYDPSTVMFFFRNKH 51 (104)
Q Consensus 3 mDe~L~~~a~~v~~--fa~IY~vDi~e--Vpdfn~myeL~dP~tvMFFfrnkH 51 (104)
+...+..++++.++ -..+..+|.++ -+++.+-|.+...+|+ ++|++..
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~id~~~~~~~~~~~~~~i~~~Pt~-~~~~~g~ 86 (104)
T cd02997 35 MKPEFTKAATELKEDGKGVLAAVDCTKPEHDALKEEYNVKGFPTF-KYFENGK 86 (104)
T ss_pred hCHHHHHHHHHHhhCCceEEEEEECCCCccHHHHHhCCCccccEE-EEEeCCC
Confidence 34456667766652 23455578777 8888888888665565 4555544
No 50
>cd02953 DsbDgamma DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD alpha). DsbD beta, a transmembrane domain comprising of eight helices, acquires its reducing potential from the cytoplasmic thioredoxin. DsbD alpha transfers the acquired reducing potential from DsbD gamma to target proteins such as the periplasmic protein disulphide isomerases, DsbC and DsbG. This flow of reducing potential from the cytoplasm through DsbD allows DsbC and DsbG to act as isomerases in the oxidizing environment of the bacterial periplasm. DsbD also transfers reducing potential from the cytoplasm to specific reductases in the periplasm which are involved in the maturation of cytochromes.
Probab=68.92 E-value=14 Score=23.78 Aligned_cols=39 Identities=18% Similarity=0.449 Sum_probs=27.7
Q ss_pred HHhHHhhhcceEEEEEeCCC----cccccccccccccceEEEE
Q 034085 8 SSVAETIKNFAVIYLVDISE----VPDFNTMYELYDPSTVMFF 46 (104)
Q Consensus 8 ~~~a~~v~~fa~IY~vDi~e----Vpdfn~myeL~dP~tvMFF 46 (104)
.++++.+++-..++-+|+++ .+++.+-|.+..-+|++||
T Consensus 37 ~~~~~~~~~~~~~~~vd~~~~~~~~~~~~~~~~i~~~Pti~~~ 79 (104)
T cd02953 37 PEVQAALKKDVVLLRADWTKNDPEITALLKRFGVFGPPTYLFY 79 (104)
T ss_pred HHHHHHHhCCeEEEEEecCCCCHHHHHHHHHcCCCCCCEEEEE
Confidence 35666666456677789877 7888888888765676555
No 51
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=68.50 E-value=13 Score=27.45 Aligned_cols=49 Identities=8% Similarity=0.121 Sum_probs=36.2
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCcee
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHI 52 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm 52 (104)
.|+.+|.++|.+-.+ ..++-||+++. +..+-|.+.-=+|+++|.+++-+
T Consensus 100 ~m~~~l~~LA~~~~~-vkF~kVd~d~~-~l~~~f~v~~vPTlllyk~G~~v 148 (175)
T cd02987 100 ALNSSLLCLAAEYPA-VKFCKIRASAT-GASDEFDTDALPALLVYKGGELI 148 (175)
T ss_pred HHHHHHHHHHHHCCC-eEEEEEeccch-hhHHhCCCCCCCEEEEEECCEEE
Confidence 478889999988654 67899999876 66677777655587777766544
No 52
>PRK04210 phosphoenolpyruvate carboxykinase; Provisional
Probab=67.19 E-value=5.7 Score=36.04 Aligned_cols=38 Identities=26% Similarity=0.529 Sum_probs=30.4
Q ss_pred EecCCCCCceEEeecCChhHHHHHHHHHhhccccCceeEEccCC
Q 034085 54 IDLGTGNNNKINWALKDKQEFIDIVETVYRGARKGRGLVIAPKD 97 (104)
Q Consensus 54 vD~GTgnnnKin~~~~~kQefIDiie~iyrgA~kGkglV~sP~d 97 (104)
-|.|.-|| --+.+|+-..+..+|+|+||||.+-|-|.-
T Consensus 88 ~dagp~nn------w~~p~e~~~~l~~lf~G~M~GRTMyVipfs 125 (601)
T PRK04210 88 EDAGPTNN------WMDPAEMRETLKGLFKGCMRGRTMYVVPFS 125 (601)
T ss_pred hhcCCccC------cCCHHHHHHHHHHhcCCccCCCeEEEeeee
Confidence 35565554 247799999999999999999999998764
No 53
>cd02998 PDI_a_ERp38 PDIa family, endoplasmic reticulum protein 38 (ERp38) subfamily; composed of proteins similar to the P5-like protein first isolated from alfalfa, which contains two redox active TRX (a) domains at the N-terminus, like human P5, and a C-terminal domain with homology to the C-terminal domain of ERp29, unlike human P5. The cDNA clone of this protein (named G1) was isolated from an alfalfa cDNA library by screening with human protein disulfide isomerase (PDI) cDNA. The G1 protein is constitutively expressed in all major organs of the plant and its expression is induced by treatment with tunicamycin, indicating that it may be a glucose-regulated protein. The G1 homolog in the eukaryotic social amoeba Dictyostelium discoideum is also described as a P5-like protein, which is located in the endoplasmic reticulum (ER) despite the absence of an ER-retrieval signal. G1 homologs from Aspergillus niger and Neurospora crassa have also been characterized, and are named TIGA and ER
Probab=66.20 E-value=19 Score=22.40 Aligned_cols=48 Identities=23% Similarity=0.281 Sum_probs=34.3
Q ss_pred cchHHHHHhHHhhh--cceEEEEEeCCC-cccccccccccccceEEEEEeC
Q 034085 2 QMDEVLSSVAETIK--NFAVIYLVDISE-VPDFNTMYELYDPSTVMFFFRN 49 (104)
Q Consensus 2 ~mDe~L~~~a~~v~--~fa~IY~vDi~e-Vpdfn~myeL~dP~tvMFFfrn 49 (104)
++...+..++++.+ +-..++-+|.++ -+++.+-|.+..-+|+.+|-.+
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~id~~~~~~~~~~~~~i~~~P~~~~~~~~ 85 (105)
T cd02998 35 NLAPEYEKLAAVFANEDDVVIAKVDADEANKDLAKKYGVSGFPTLKFFPKG 85 (105)
T ss_pred hhChHHHHHHHHhCCCCCEEEEEEECCCcchhhHHhCCCCCcCEEEEEeCC
Confidence 34567778888776 345678889988 8999998999776665455333
No 54
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=66.17 E-value=16 Score=21.70 Aligned_cols=46 Identities=15% Similarity=0.221 Sum_probs=30.6
Q ss_pred hHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCcee
Q 034085 4 DEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHI 52 (104)
Q Consensus 4 De~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm 52 (104)
-++|.++++. ..-..+..+|+++-|+..+.|.+.-=+| +++.++|+
T Consensus 18 ~~~l~~l~~~-~~~i~~~~id~~~~~~l~~~~~i~~vPt--i~i~~~~~ 63 (67)
T cd02973 18 VQAANRIAAL-NPNISAEMIDAAEFPDLADEYGVMSVPA--IVINGKVE 63 (67)
T ss_pred HHHHHHHHHh-CCceEEEEEEcccCHhHHHHcCCcccCE--EEECCEEE
Confidence 3456666553 2235678889999898888888854445 35577775
No 55
>TIGR00424 APS_reduc 5'-adenylylsulfate reductase, thioredoxin-independent. This enzyme, involved in the assimilation of inorganic sulfate, is closely related to the thioredoxin-dependent PAPS reductase of Bacteria (CysH) and Saccharomyces cerevisiae. However, it has its own C-terminal thioredoxin-like domain and is not thioredoxin-dependent. Also, it has a substrate preference for 5'-adenylylsulfate (APS) over 3'-phosphoadenylylsulfate (PAPS) so the pathway does not require an APS kinase (CysC) to convert APS to PAPS. Arabidopsis thaliana appears to have three isozymes, all able to complement E. coli CysH mutants (even in backgrounds lacking thioredoxin or APS kinase) but likely localized to different compartments in Arabidopsis.
Probab=64.15 E-value=16 Score=31.72 Aligned_cols=54 Identities=17% Similarity=0.198 Sum_probs=37.1
Q ss_pred chHHHHHhHHhhhc-ceEEEEEeCCCcc-cc-cccccccccceEEEEEeCceeEEec
Q 034085 3 MDEVLSSVAETIKN-FAVIYLVDISEVP-DF-NTMYELYDPSTVMFFFRNKHIMIDL 56 (104)
Q Consensus 3 mDe~L~~~a~~v~~-fa~IY~vDi~eVp-df-n~myeL~dP~tvMFFfrnkHm~vD~ 56 (104)
|..++.++|++.+. -..++.+|++.-+ ++ .+-|.+..-+|++||-++++-.+.+
T Consensus 389 m~P~~eelA~~~~~~~v~~~kVdvD~~~~~~~~~~~~I~~~PTii~Fk~g~~~~~~Y 445 (463)
T TIGR00424 389 MEASYLELAEKLAGSGVKVAKFRADGDQKEFAKQELQLGSFPTILFFPKHSSRPIKY 445 (463)
T ss_pred HHHHHHHHHHHhccCCcEEEEEECCCCccHHHHHHcCCCccceEEEEECCCCCceeC
Confidence 55678888888764 2567889887643 34 3678888888988887665433444
No 56
>cd02955 SSP411 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein, called SSP411, is specifically expressed in the testis in an age-dependent manner. The SSP411 mRNA is increased during spermiogenesis and is localized in round and elongated spermatids, suggesting a function in fertility regulation.
Probab=63.92 E-value=36 Score=24.08 Aligned_cols=68 Identities=19% Similarity=0.176 Sum_probs=43.2
Q ss_pred HhHHhhhcceEEEEEeCCCcccccccc--------cccccceEEEEE-eCceeEEecCCCCCceEEeecCChhHHHHHHH
Q 034085 9 SVAETIKNFAVIYLVDISEVPDFNTMY--------ELYDPSTVMFFF-RNKHIMIDLGTGNNNKINWALKDKQEFIDIVE 79 (104)
Q Consensus 9 ~~a~~v~~fa~IY~vDi~eVpdfn~my--------eL~dP~tvMFFf-rnkHm~vD~GTgnnnKin~~~~~kQefIDiie 79 (104)
++++.+.+-.+.+-+|.++-|+..+.| ...-++|+.|+= .++.+.-+.|.+.-+++.. +.|-++++
T Consensus 42 ~V~~~l~~~fv~VkvD~~~~~~~~~~~~~~~~~~~~~~G~Pt~vfl~~~G~~~~~~~~~~~~~~~~~-----~~~~~~~~ 116 (124)
T cd02955 42 EVAAILNENFVPIKVDREERPDVDKIYMNAAQAMTGQGGWPLNVFLTPDLKPFFGGTYFPPEDRYGR-----PGFKTVLE 116 (124)
T ss_pred HHHHHHhCCEEEEEEeCCcCcHHHHHHHHHHHHhcCCCCCCEEEEECCCCCEEeeeeecCCCCcCCC-----cCHHHHHH
Confidence 455555433455678999988875533 344567765663 3688888888777777653 55666655
Q ss_pred HH
Q 034085 80 TV 81 (104)
Q Consensus 80 ~i 81 (104)
.|
T Consensus 117 ~~ 118 (124)
T cd02955 117 KI 118 (124)
T ss_pred HH
Confidence 44
No 57
>PF11399 DUF3192: Protein of unknown function (DUF3192); InterPro: IPR021534 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=62.83 E-value=5.5 Score=28.56 Aligned_cols=32 Identities=31% Similarity=0.474 Sum_probs=25.1
Q ss_pred cccccccccccccceEEEEEeCceeEEecCCC
Q 034085 28 VPDFNTMYELYDPSTVMFFFRNKHIMIDLGTG 59 (104)
Q Consensus 28 Vpdfn~myeL~dP~tvMFFfrnkHm~vD~GTg 59 (104)
.|||++.|.-.+-.--..|||-+|++-|-=|-
T Consensus 46 ~pdfsEa~~~~~~~~qVLfYrT~~~~sDG~TT 77 (102)
T PF11399_consen 46 TPDFSEAYRKDDKHVQVLFYRTQHKKSDGITT 77 (102)
T ss_pred CCCchhheeeCCcEEEEEEEEEeeEcCCCCcc
Confidence 69999999886554446889999999886553
No 58
>cd02950 TxlA TRX-like protein A (TxlA) family; TxlA was originally isolated from the cyanobacterium Synechococcus. It is found only in oxygenic photosynthetic organisms. TRX is a small enzyme that participate in redox reactions, via the reversible oxidation of an active site dithiol present in a CXXC motif. Disruption of the txlA gene suggests that the protein is involved in the redox regulation of the structure and function of photosynthetic apparatus. The plant homolog (designated as HCF164) is localized in the chloroplast and is involved in the assembly of the cytochrome b6f complex, which takes a central position in photosynthetic electron transport.
Probab=62.67 E-value=52 Score=23.21 Aligned_cols=74 Identities=9% Similarity=0.072 Sum_probs=45.7
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCC--cccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISE--VPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~e--Vpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
|...|.+++++.+.-..++.+|++. .++..+-|.+.--+|++||-++. -.++ ++.+. .+++++.++++.
T Consensus 38 ~~p~l~~l~~~~~~~~~~v~v~vd~~~~~~~~~~~~V~~iPt~v~~~~~G-~~v~-------~~~G~-~~~~~l~~~l~~ 108 (142)
T cd02950 38 MAPDVAKLKQKYGDQVNFVMLNVDNPKWLPEIDRYRVDGIPHFVFLDREG-NEEG-------QSIGL-QPKQVLAQNLDA 108 (142)
T ss_pred hHHHHHHHHHHhccCeeEEEEEcCCcccHHHHHHcCCCCCCEEEEECCCC-CEEE-------EEeCC-CCHHHHHHHHHH
Confidence 4567778887775445677778764 34666777776666655553222 1222 22332 356889999999
Q ss_pred Hhhcc
Q 034085 81 VYRGA 85 (104)
Q Consensus 81 iyrgA 85 (104)
+..|.
T Consensus 109 l~~~~ 113 (142)
T cd02950 109 LVAGE 113 (142)
T ss_pred HHcCC
Confidence 88765
No 59
>COG0526 TrxA Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]
Probab=62.07 E-value=24 Score=20.52 Aligned_cols=49 Identities=20% Similarity=0.318 Sum_probs=36.3
Q ss_pred chHHHHHhHHhhhcceEEEEEeCC-Cccccccccc--ccccceEEEEEeCce
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDIS-EVPDFNTMYE--LYDPSTVMFFFRNKH 51 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~-eVpdfn~mye--L~dP~tvMFFfrnkH 51 (104)
+...|.+++++..+-..+..+|.. ..++..+.|. .....++..+.+.+.
T Consensus 50 ~~~~l~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~ 101 (127)
T COG0526 50 EAPLLEELAEEYGGDVEVVAVNVDDENPDLAAEFGVAVRSIPTLLLFKDGKE 101 (127)
T ss_pred hchhHHHHHHHhcCCcEEEEEECCCCChHHHHHHhhhhccCCeEEEEeCcch
Confidence 456788888887776778888886 8999999999 666566555554444
No 60
>KOG4122 consensus Mitochondrial/chloroplast ribosomal protein L36 [Translation, ribosomal structure and biogenesis]
Probab=59.72 E-value=6 Score=24.12 Aligned_cols=27 Identities=30% Similarity=0.326 Sum_probs=21.1
Q ss_pred HHHHHhhccccCceeEEccCCcccccc
Q 034085 77 IVETVYRGARKGRGLVIAPKDYSTKYR 103 (104)
Q Consensus 77 iie~iyrgA~kGkglV~sP~dy~~~~~ 103 (104)
..+--|-=-++||+.|+||..+..++|
T Consensus 10 ~C~~Cy~VrRrgR~yViC~~~prHKqr 36 (38)
T KOG4122|consen 10 RCKDCYLVRRRGRVYVICKTHPRHKQR 36 (38)
T ss_pred hhhhceEEEEcccEEEEcCCCcchhhh
Confidence 444555566899999999999888765
No 61
>cd00819 PEPCK_GTP Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity, this model describes the GTP-dependent group.
Probab=58.62 E-value=9.9 Score=34.40 Aligned_cols=37 Identities=27% Similarity=0.542 Sum_probs=30.2
Q ss_pred ecCCCCCceEEeecCChhHHHHHHHHHhhccccCceeEEccCC
Q 034085 55 DLGTGNNNKINWALKDKQEFIDIVETVYRGARKGRGLVIAPKD 97 (104)
Q Consensus 55 D~GTgnnnKin~~~~~kQefIDiie~iyrgA~kGkglV~sP~d 97 (104)
|.|.-|| --+.+|+...+..+|+|.||||.+-|-|.-
T Consensus 75 dagp~nn------w~~p~e~~~~l~~lf~G~M~GRTMYVipfs 111 (579)
T cd00819 75 DAGPTNN------WMDPEEMKAELKELFKGCMRGRTMYVIPFS 111 (579)
T ss_pred ccCCccc------cCCHHHHHHHHHhhCCcccCCCeEEEEeee
Confidence 5555555 247799999999999999999999988764
No 62
>TIGR02187 GlrX_arch Glutaredoxin-like domain protein. This family of archaeal proteins contains a C-terminal domain with homology to bacterial and eukaryotic glutaredoxins, including a CPYC motif. There is an N-terminal domain which has even more distant homology to glutaredoxins. The name "glutaredoxin" may be inappropriate in the sense of working in tandem with glutathione and glutathione reductase which may not be present in the archaea. The overall domain structure appears to be related to bacterial alkylhydroperoxide reductases, but the homology may be distant enough that the function of this family is wholly different.
Probab=57.89 E-value=43 Score=24.94 Aligned_cols=64 Identities=9% Similarity=0.140 Sum_probs=41.5
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
+..+|.+++.+ ..-..++.+|+++-|+..+-|.+..-+|++|| ++. .. +.+ ..++++|.+.++.
T Consensus 151 ~~~~l~~l~~~-~~~i~~~~vD~~~~~~~~~~~~V~~vPtl~i~-~~~-~~----------~~G-~~~~~~l~~~l~~ 214 (215)
T TIGR02187 151 AVLMAHKFALA-NDKILGEMIEANENPDLAEKYGVMSVPKIVIN-KGV-EE----------FVG-AYPEEQFLEYILS 214 (215)
T ss_pred HHHHHHHHHHh-cCceEEEEEeCCCCHHHHHHhCCccCCEEEEe-cCC-EE----------EEC-CCCHHHHHHHHHh
Confidence 34566666665 23345678999999999999999776676654 221 11 333 4467888877763
No 63
>cd02952 TRP14_like Human TRX-related protein 14 (TRP14)-like family; composed of proteins similar to TRP14, a 14kD cytosolic protein that shows disulfide reductase activity in vitro with a different substrate specificity compared with another human cytosolic protein, TRX1. TRP14 catalyzes the reduction of small disulfide-containing peptides but does not reduce disulfides of ribonucleotide reductase, peroxiredoxin and methionine sulfoxide reductase, which are TRX1 substrates. TRP14 also plays a role in tumor necrosis factor (TNF)-alpha signaling pathways, distinct from that of TRX1. Its depletion promoted TNF-alpha induced activation of c-Jun N-terminal kinase and mitogen-activated protein kinases.
Probab=57.20 E-value=21 Score=25.28 Aligned_cols=44 Identities=18% Similarity=0.271 Sum_probs=32.4
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcc-------ccccccccc-ccceEEEE
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVP-------DFNTMYELY-DPSTVMFF 46 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVp-------dfn~myeL~-dP~tvMFF 46 (104)
|.-+|.+++++.+.-..++-||+++.| ++-+-|.+. -=+|+|+|
T Consensus 46 ~~P~l~~l~~~~~~~v~fv~Vdvd~~~~w~d~~~~~~~~~~I~~~iPT~~~~ 97 (119)
T cd02952 46 AEPVVREALKAAPEDCVFIYCDVGDRPYWRDPNNPFRTDPKLTTGVPTLLRW 97 (119)
T ss_pred hchhHHHHHHHCCCCCEEEEEEcCCcccccCcchhhHhccCcccCCCEEEEE
Confidence 445788888887744677999998754 787888886 54587777
No 64
>cd05796 Ribosomal_P0_like Ribosomal protein L10 family, P0-like protein subfamily; composed of uncharacterized eukaryotic proteins with similarity to the 60S ribosomal protein P0, including the Saccharomyces cerevisiae protein called mRNA turnover protein 4 (MRT4). MRT4 may be involved in mRNA decay. P0 forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. It occupies the L7/L12 stalk of the ribosome. The stalk is known to contain the binding site for elongation factors EF-G and EF-Tu; however, there is disagreement as to whether or not P0 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, P0 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WAS
Probab=56.21 E-value=23 Score=26.04 Aligned_cols=79 Identities=16% Similarity=0.412 Sum_probs=57.0
Q ss_pred HHHHHhHHhhhcceEEEEEeCCCcccccccccc---cccceEEEEEeCceeEEecCC-C----------------CCceE
Q 034085 5 EVLSSVAETIKNFAVIYLVDISEVPDFNTMYEL---YDPSTVMFFFRNKHIMIDLGT-G----------------NNNKI 64 (104)
Q Consensus 5 e~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL---~dP~tvMFFfrnkHm~vD~GT-g----------------nnnKi 64 (104)
+++.++.+.++++-.+|+||.+-++. +++=+| .-+. .+++-+|+=|+.-++. + +++-+
T Consensus 5 ~~v~~l~e~l~~y~~v~iv~~~gl~~-~ql~~iR~~lr~~-~~~v~KNtl~~~Al~~~~~~~~~~~~~~L~~~l~G~~~l 82 (163)
T cd05796 5 KLVENIREAVDKYKYIYVFSVDNMRN-NKLKDIRQEWKDS-RFFFGKNKVMQVALGRTPEDEYKPNLHKLSKYLKGQVGL 82 (163)
T ss_pred HHHHHHHHHHHhCCEEEEEEecCCCH-HHHHHHHHHhcCC-EEEEEchHHHHHHHhhCccccccccHHHHHHHhCCCEEE
Confidence 67889999999999999999988764 344444 2234 6899999999987764 1 12334
Q ss_pred EeecCChhHHHHHHHHHhhcc
Q 034085 65 NWALKDKQEFIDIVETVYRGA 85 (104)
Q Consensus 65 n~~~~~kQefIDiie~iyrgA 85 (104)
.|.=+|..+..++++.--+.+
T Consensus 83 ift~~dp~~v~k~l~~~~~~~ 103 (163)
T cd05796 83 LFTNEPPEEVIEYFDSYSEPD 103 (163)
T ss_pred EEECCCHHHHHHHHHHcCCcc
Confidence 555567888888888766554
No 65
>cd05795 Ribosomal_P0_L10e Ribosomal protein L10 family, P0 and L10e subfamily; composed of eukaryotic 60S ribosomal protein P0 and the archaeal P0 homolog, L10e. P0 or L10e forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-interacting protein (WIP). These eukaryotic and archaeal P0 sequences have an additional C-terminal domain homologous with acidic proteins P1 and P2.
Probab=54.69 E-value=22 Score=26.40 Aligned_cols=79 Identities=19% Similarity=0.215 Sum_probs=56.5
Q ss_pred HHHHHhHHhhhcceEEEEEeCCCcccccccccc----cccceEEEEEeCceeEEecCCC---------------CCceEE
Q 034085 5 EVLSSVAETIKNFAVIYLVDISEVPDFNTMYEL----YDPSTVMFFFRNKHIMIDLGTG---------------NNNKIN 65 (104)
Q Consensus 5 e~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL----~dP~tvMFFfrnkHm~vD~GTg---------------nnnKin 65 (104)
+++.++.+.++++-.+|++|.+-++. +++=+| .+- +.+++.+|+=|+.-+|.- +++-+.
T Consensus 5 ~~v~el~e~l~~~~~v~v~~~~gl~~-~ql~~lR~~lr~~-~~~~v~KNtL~~~Al~~~~~~~~~~~~L~~~l~G~~~li 82 (175)
T cd05795 5 EYVEKLTELLKSYPKVLIVDADNVGS-KQLQKIRRSLRGK-AEILMGKNTLIRRALRNLGDENPELEKLLPYLKGNVGFI 82 (175)
T ss_pred HHHHHHHHHHHhCCEEEEEEecCCCh-HHHHHHHHHhhCC-CEEEEechHHHHHHHHhcccccccHHHHHHHhcCCEEEE
Confidence 57889999999999999999988764 333344 333 568999999999977752 223355
Q ss_pred eecCChhHHHHHHHHHhhcc
Q 034085 66 WALKDKQEFIDIVETVYRGA 85 (104)
Q Consensus 66 ~~~~~kQefIDiie~iyrgA 85 (104)
|.-+|..+...+++.--+.+
T Consensus 83 Ft~~dp~~v~k~l~~~~~~~ 102 (175)
T cd05795 83 FTNGDPFEIRKILEENKVPA 102 (175)
T ss_pred EECCCHHHHHHHHHHcCCcc
Confidence 55567777788877755543
No 66
>PLN02309 5'-adenylylsulfate reductase
Probab=54.30 E-value=32 Score=29.87 Aligned_cols=46 Identities=15% Similarity=0.229 Sum_probs=34.4
Q ss_pred cchHHHHHhHHhhhcc-eEEEEEeCC-Ccccccc-cccccccceEEEEE
Q 034085 2 QMDEVLSSVAETIKNF-AVIYLVDIS-EVPDFNT-MYELYDPSTVMFFF 47 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~f-a~IY~vDi~-eVpdfn~-myeL~dP~tvMFFf 47 (104)
+|...+.++|++++.- ..++.+|.+ +-.++.+ .|.+..-+|+.||-
T Consensus 382 ~m~p~~e~LA~~~~~~~V~f~kVD~d~~~~~la~~~~~I~~~PTil~f~ 430 (457)
T PLN02309 382 AMEASYEELAEKLAGSGVKVAKFRADGDQKEFAKQELQLGSFPTILLFP 430 (457)
T ss_pred HHHHHHHHHHHHhccCCeEEEEEECCCcchHHHHhhCCCceeeEEEEEe
Confidence 3667788899988654 678999998 5566654 68998888976654
No 67
>TIGR01130 ER_PDI_fam protein disulfide isomerases, eukaryotic. Members of this family have at least two protein-disulfide domains, each similar to thioredoxin but with the redox-active disulfide in the motif PWCGHCK, and an ER retention signal at the extreme C-terminus (KDEL, HDEL, and similar motifs).
Probab=53.56 E-value=38 Score=26.82 Aligned_cols=49 Identities=18% Similarity=0.234 Sum_probs=36.3
Q ss_pred chHHHHHhHHhhhcc---eEEEEEeCCCcccccccccccccceEEEEEeCce
Q 034085 3 MDEVLSSVAETIKNF---AVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKH 51 (104)
Q Consensus 3 mDe~L~~~a~~v~~f---a~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkH 51 (104)
+...+.++|+.++.. ..+..||.++=++..+-|.+...+|+++|-++++
T Consensus 36 ~~~~~~~~a~~~~~~~~~v~~~~vd~~~~~~l~~~~~i~~~Pt~~~~~~g~~ 87 (462)
T TIGR01130 36 LAPEYEKAADELKKKGPPIKLAKVDATEEKDLAQKYGVSGYPTLKIFRNGED 87 (462)
T ss_pred hhHHHHHHHHHHhhcCCceEEEEEECCCcHHHHHhCCCccccEEEEEeCCcc
Confidence 344566777777654 6778899988888888888877678777765665
No 68
>TIGR00411 redox_disulf_1 small redox-active disulfide protein 1. This protein is homologous to a family of proteins that includes thioredoxins, glutaredoxins, protein-disulfide isomerases, and others, some of which have several such domains. The sequence of this protein at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although its overall sequence seems closer to thioredoxins. It is suggested to be a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.
Probab=50.15 E-value=37 Score=20.40 Aligned_cols=64 Identities=13% Similarity=0.262 Sum_probs=41.5
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
+...|.+++.+.+.-..+..+|+++-|+-.+-|.+.--+|++ ++++ -++.| ..+++++.+.++.
T Consensus 17 ~~~~l~~l~~~~~~~~~~~~vd~~~~~~~~~~~~v~~vPt~~--~~g~-----------~~~~G-~~~~~~l~~~l~~ 80 (82)
T TIGR00411 17 AKRVVEEVAKEMGDAVEVEYINVMENPQKAMEYGIMAVPAIV--INGD-----------VEFIG-APTKEELVEAIKK 80 (82)
T ss_pred HHHHHHHHHHHhcCceEEEEEeCccCHHHHHHcCCccCCEEE--ECCE-----------EEEec-CCCHHHHHHHHHh
Confidence 456777777766554677899999999888878875444432 3432 13333 3466787777654
No 69
>PF14479 HeLo: Prion-inhibition and propagation; PDB: 2WVQ_A 2WVN_A 2WVO_A.
Probab=49.62 E-value=14 Score=27.09 Aligned_cols=24 Identities=29% Similarity=0.631 Sum_probs=14.7
Q ss_pred CCCCceEEeecCChhHHHHHHHHH
Q 034085 58 TGNNNKINWALKDKQEFIDIVETV 81 (104)
Q Consensus 58 TgnnnKin~~~~~kQefIDiie~i 81 (104)
++-..|+.||+.||+.|=++|+.+
T Consensus 146 ~~~~~r~~Wai~Dk~~F~~lI~~l 169 (212)
T PF14479_consen 146 TSLPKRARWAIYDKEKFERLIEDL 169 (212)
T ss_dssp S-S-----EEE-SHHHHHHHHHHH
T ss_pred ccccccceeeecchHHHHHHHHHH
Confidence 445578999999999999999875
No 70
>cd02992 PDI_a_QSOX PDIa family, Quiescin-sulfhydryl oxidase (QSOX) subfamily; QSOX is a eukaryotic protein containing an N-terminal redox active TRX domain, similar to that of PDI, and a small C-terminal flavin adenine dinucleotide (FAD)-binding domain homologous to the yeast ERV1p protein. QSOX oxidizes thiol groups to disulfides like PDI, however, unlike PDI, this oxidation is accompanied by the reduction of oxygen to hydrogen peroxide. QSOX is localized in high concentrations in cells with heavy secretory load and prefers peptides and proteins as substrates, not monothiols like glutathione. Inside the cell, QSOX is found in the endoplasmic reticulum and Golgi. The flow of reducing equivalents in a QSOX-catalyzed reaction goes from the dithiol substrate - dithiol of the QSOX TRX domain - dithiols of the QSOX ERV1p domain - FAD - oxygen.
Probab=48.94 E-value=34 Score=23.04 Aligned_cols=47 Identities=13% Similarity=0.152 Sum_probs=30.5
Q ss_pred chHHHHHhHHhhhc---ceEEEEEeC--CCcccccccccccccceEEEEEeC
Q 034085 3 MDEVLSSVAETIKN---FAVIYLVDI--SEVPDFNTMYELYDPSTVMFFFRN 49 (104)
Q Consensus 3 mDe~L~~~a~~v~~---fa~IY~vDi--~eVpdfn~myeL~dP~tvMFFfrn 49 (104)
|-..+.+++++.+. ...+..+|. ++.+++.+-|.+..-+|+.+|-++
T Consensus 37 ~~~~~~~la~~~~~~~~~v~~~~vd~~~~~~~~~~~~~~i~~~Pt~~lf~~~ 88 (114)
T cd02992 37 FAPTWKKLARDLRKWRPVVRVAAVDCADEENVALCRDFGVTGYPTLRYFPPF 88 (114)
T ss_pred HhHHHHHHHHHHHhcCCceEEEEEeccchhhHHHHHhCCCCCCCEEEEECCC
Confidence 44567888888764 344566663 457788888888765675555433
No 71
>PTZ00062 glutaredoxin; Provisional
Probab=46.24 E-value=46 Score=25.70 Aligned_cols=49 Identities=20% Similarity=0.365 Sum_probs=33.2
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCC
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNN 61 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnn 61 (104)
+|+++|..++++-.+ +.++-||.+ |++.-=+|.+|| ++.- .+|-=.|-|
T Consensus 34 ~m~~vl~~l~~~~~~-~~F~~V~~d--------~~V~~vPtfv~~-~~g~-~i~r~~G~~ 82 (204)
T PTZ00062 34 QLMDVCNALVEDFPS-LEFYVVNLA--------DANNEYGVFEFY-QNSQ-LINSLEGCN 82 (204)
T ss_pred HHHHHHHHHHHHCCC-cEEEEEccc--------cCcccceEEEEE-ECCE-EEeeeeCCC
Confidence 689999999998766 667888877 777655665455 4432 355444533
No 72
>cd07038 TPP_PYR_PDC_IPDC_like Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites, for many
Probab=43.92 E-value=31 Score=24.88 Aligned_cols=31 Identities=19% Similarity=0.160 Sum_probs=27.8
Q ss_pred ceEEeecCChhHHHHHHHHHhhccccCceeE
Q 034085 62 NKINWALKDKQEFIDIVETVYRGARKGRGLV 92 (104)
Q Consensus 62 nKin~~~~~kQefIDiie~iyrgA~kGkglV 92 (104)
.|+.+.+++..+....++..|+.|..|||=|
T Consensus 126 tk~~~~v~~~~~i~~~v~~A~~~a~s~~gPV 156 (162)
T cd07038 126 TCAAARLTDPENAAEEIDRVLRTALRESRPV 156 (162)
T ss_pred eeEEEEeCCHHHHHHHHHHHHHHHHHCCCCE
Confidence 5899999999999999999999999998744
No 73
>PHA02152 hypothetical protein
Probab=41.54 E-value=20 Score=25.51 Aligned_cols=46 Identities=26% Similarity=0.401 Sum_probs=29.0
Q ss_pred cccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHHHhhcccc
Q 034085 38 YDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETVYRGARK 87 (104)
Q Consensus 38 ~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~iyrgA~k 87 (104)
..|+|+ -||+.+.=+||.|-|||-=+ +..+.|---.||.++ .||+=
T Consensus 2 sspfsi-~fy~dr~~~v~~~ygnhgwi--sp~~i~~a~~ii~vv-~g~~~ 47 (96)
T PHA02152 2 SSPFTV-EFYNDRNEKVDVRYGNHGWV--SPSNIRYAENIINVV-NGARF 47 (96)
T ss_pred CCceEE-EEeccccccccccccccCcc--ChhHHHHHHHHHHhh-cccch
Confidence 468996 67788899999999998522 244444333444332 45544
No 74
>PF05972 APC_15aa: APC 15 residue motif; InterPro: IPR009240 The 15 aa repeat is found in the APC protein family. It is involved in binding beta-catenin [] along with the IPR009223 from INTERPRO repeats. Many human cancer mutations map to the region around these motifs, and may be involved in disrupting their binding of beta-catenin.; GO: 0008013 beta-catenin binding, 0016055 Wnt receptor signaling pathway; PDB: 1JPP_C.
Probab=40.98 E-value=10 Score=19.32 Aligned_cols=10 Identities=60% Similarity=0.982 Sum_probs=4.8
Q ss_pred ccCCcccccc
Q 034085 94 APKDYSTKYR 103 (104)
Q Consensus 94 sP~dy~~~~~ 103 (104)
-|.|||.+|.
T Consensus 4 qP~dyS~kY~ 13 (16)
T PF05972_consen 4 QPIDYSLKYS 13 (16)
T ss_dssp ----CCCCTT
T ss_pred cccchhhhcc
Confidence 3889998874
No 75
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=40.87 E-value=1e+02 Score=20.26 Aligned_cols=63 Identities=14% Similarity=0.232 Sum_probs=37.7
Q ss_pred hHHhhhcceEEEEEeCCC--cccccccccccccceEEEEEeCceeEEecCCCCC-ceEEeecCChhHHHHHHHHH
Q 034085 10 VAETIKNFAVIYLVDISE--VPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNN-NKINWALKDKQEFIDIVETV 81 (104)
Q Consensus 10 ~a~~v~~fa~IY~vDi~e--Vpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnn-nKin~~~~~kQefIDiie~i 81 (104)
+.+.+++-.+.+.+|+++ -..|...|.....++++|+ ..+ +|.. ..+.+.. ++++|+..++.+
T Consensus 45 v~~~l~~~~v~~~~d~~~~e~~~~~~~~~~~~~P~~~~i-~~~-------~g~~l~~~~G~~-~~~~f~~~L~~~ 110 (114)
T cd02958 45 VKEFIRENFIFWQCDIDSSEGQRFLQSYKVDKYPHIAII-DPR-------TGEVLKVWSGNI-TPEDLLSQLIEF 110 (114)
T ss_pred HHHHHHhCEEEEEecCCCccHHHHHHHhCccCCCeEEEE-eCc-------cCcEeEEEcCCC-CHHHHHHHHHHH
Confidence 445565566778889874 5556677777666665554 332 3332 2344444 667888777654
No 76
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=39.77 E-value=36 Score=29.79 Aligned_cols=37 Identities=32% Similarity=0.548 Sum_probs=31.7
Q ss_pred ceEEeecCChhHHHHHHHHHhhccccCc-ee--EEccCCc
Q 034085 62 NKINWALKDKQEFIDIVETVYRGARKGR-GL--VIAPKDY 98 (104)
Q Consensus 62 nKin~~~~~kQefIDiie~iyrgA~kGk-gl--V~sP~dy 98 (104)
.|+++.+.+.+|+-++++..||-|..|| |- |.=|+|.
T Consensus 123 tk~~~~v~~~~~ip~~i~~Af~~A~sgrpGpv~i~iP~Dv 162 (550)
T COG0028 123 TKYNFEVRSPEDIPEVVARAFRIALSGRPGPVVVDLPKDV 162 (550)
T ss_pred heeEEEeCCHHHHHHHHHHHHHHHhcCCCceEEEEcChhH
Confidence 5999999999999999999999999888 54 4557764
No 77
>KOG2013 consensus SMT3/SUMO-activating complex, catalytic component UBA2 [Posttranslational modification, protein turnover, chaperones]
Probab=39.45 E-value=23 Score=32.19 Aligned_cols=39 Identities=31% Similarity=0.587 Sum_probs=28.6
Q ss_pred HHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCceeE
Q 034085 5 EVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIM 53 (104)
Q Consensus 5 e~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~ 53 (104)
|+|.-+|. ..|-.|.++|.+.+ ||..= .=-||||.+|+.
T Consensus 26 ELLKnLal--~gf~~IhiIDlDTI-------DlSNL-NRQFLFrkkhVg 64 (603)
T KOG2013|consen 26 ELLKNLAL--TGFEEIHIIDLDTI-------DLSNL-NRQFLFRKKHVG 64 (603)
T ss_pred HHHHHHHH--hcCCeeEEEeccce-------eccch-hhhheeehhhcC
Confidence 56666664 68899999999988 56432 224999999983
No 78
>PF06713 bPH_4: Bacterial PH domain; InterPro: IPR009589 This entry is represented by Bacteriophage SP-beta, YolF. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical proteins specific to Oceanobacillus and Bacillus species. Members of this family are typically around 130 residues in length. The function of this family is unknown.
Probab=37.89 E-value=63 Score=20.77 Aligned_cols=31 Identities=29% Similarity=0.319 Sum_probs=23.6
Q ss_pred eCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 48 RNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 48 rnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
--+.+.+.+|.++ .+--+..++++||.-+..
T Consensus 42 S~~rl~I~y~~~~--~i~IsP~~~~~FI~~L~k 72 (74)
T PF06713_consen 42 SLDRLEIYYGKYK--SILISPKDKEEFIAELQK 72 (74)
T ss_pred cccEEEEEECCCC--EEEEECCCHHHHHHHHHh
Confidence 4588899988333 377789999999987754
No 79
>cd07035 TPP_PYR_POX_like Pyrimidine (PYR) binding domain of POX and related proteins. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) and related protiens subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. For glyoxylate carboligase, which belongs to this subfamily, but lacks this conserved glutamate, the rate of the initial TPP activation step is reduced but the ensuing steps of the enzymic reaction proceed efficiently. The PYR and PP domains have a common fold, but do not share strong sequence conservatio
Probab=37.74 E-value=51 Score=22.70 Aligned_cols=30 Identities=20% Similarity=0.337 Sum_probs=26.3
Q ss_pred ceEEeecCChhHHHHHHHHHhhccccC-cee
Q 034085 62 NKINWALKDKQEFIDIVETVYRGARKG-RGL 91 (104)
Q Consensus 62 nKin~~~~~kQefIDiie~iyrgA~kG-kgl 91 (104)
.|+.+.+++.++.-+.++..++-|..+ +|=
T Consensus 118 ~~~~~~i~~~~~~~~~i~~A~~~a~~~~~gP 148 (155)
T cd07035 118 TKWAYRVTSPEEIPEALRRAFRIALSGRPGP 148 (155)
T ss_pred hceEEEcCCHHHHHHHHHHHHHHhcCCCCCc
Confidence 488889999999999999999999877 453
No 80
>PF00821 PEPCK: Phosphoenolpyruvate carboxykinase; InterPro: IPR008209 Phosphoenolpyruvate carboxykinase (PEPCK) catalyses the first committed (rate-limiting) step in hepatic gluconeogenesis, namely the reversible decarboxylation of oxaloacetate to phosphoenolpyruvate (PEP) and carbon dioxide, using either ATP or GTP as a source of phosphate. The ATP-utilising (4.1.1.49 from EC) and GTP-utilising (4.1.1.32 from EC) enzymes form two divergent subfamilies, which have little sequence similarity but which retain conserved active site residues. ATP-utilising PEPCKs are monomers or oligomers of identical subunits found in certain bacteria, yeast, trypanosomatids, and plants, while GTP-utilising PEPCKs are mainly monomers found in animals and some bacteria []. Both require divalent cations for activity, such as magnesium or manganese. One cation interacts with the enzyme at metal binding site 1 to elicit activation, while the second cation interacts at metal binding site 2 to serve as a metal-nucleotide substrate. In bacteria, fungi and plants, PEPCK is involved in the glyoxylate bypass, an alternative to the tricarboxylic acid cycle. PEPCK helps to regulate blood glucose levels. The rate of gluconeogenesis can be controlled through transcriptional regulation of the PEPCK gene by cAMP (the mediator of glucagon and catecholamines), glucocorticoids and insulin. In general, PEPCK expression is induced by glucagon, catecholamines and glucocorticoids during periods of fasting and in response to stress, but is inhibited by (glucose-induced) insulin upon feeding []. With type II diabetes, this regulation system can fail, resulting in increased gluconeogenesis that in turn raises glucose levels []. PEPCK consists of an N-terminal and a catalytic C-terminal domain, with the active site and metal ions located in a cleft between them. Both domains have an alpha/beta topology that is partly similar to one another [, ]. Substrate binding causes PEPCK to undergo a conformational change, which accelerates catalysis by forcing bulk solvent molecules out of the active site []. PCK uses an alpha/beta/alpha motif for nucleotide binding, this motif differing from other kinase domains. GTP-utilising PEPCK has a PEP-binding domain and two kinase motifs to bind GTP and magnesium. This entry represents GTP-utilising phosphoenolpyruvate carboxykinase enzymes.; GO: 0004611 phosphoenolpyruvate carboxykinase activity, 0005525 GTP binding, 0006094 gluconeogenesis; PDB: 2FAH_A 2FAF_A 2QZY_B 2ZCI_D 3MOE_A 3DT7_B 2RKD_A 2RKA_A 2RK8_A 2QF2_B ....
Probab=37.49 E-value=16 Score=33.15 Aligned_cols=28 Identities=25% Similarity=0.501 Sum_probs=24.5
Q ss_pred CChhHHHHHHHHHhhccccCceeEEccC
Q 034085 69 KDKQEFIDIVETVYRGARKGRGLVIAPK 96 (104)
Q Consensus 69 ~~kQefIDiie~iyrgA~kGkglV~sP~ 96 (104)
-+.+|+..-+...|+|.||||.+.|-|.
T Consensus 83 ~~~~~~~~~l~~~f~G~M~GRtMyVipf 110 (586)
T PF00821_consen 83 MDPEEMKAELDELFPGCMKGRTMYVIPF 110 (586)
T ss_dssp E-HHHHHHHHHCCSTTTTTTSEEEEEEE
T ss_pred CCHHHHHHHHHHhchhhhhhchHHhhHh
Confidence 3678999999999999999999998775
No 81
>cd06155 eu_AANH_C_1 A group of hypothetical eukaryotic proteins, characterized by the presence of an adenine nucleotide alpha hydrolase (AANH)-like domain located N-terminal to two distinctly different YjgF-YER057c-UK114-like domains. This CD contains the first of these domains. The YjgF-YER057c-UK114 protein family is a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=37.27 E-value=7.5 Score=25.98 Aligned_cols=35 Identities=26% Similarity=0.604 Sum_probs=24.8
Q ss_pred chHHHHHhHHhhhc--ceEEEEEeCCCcccccccccc
Q 034085 3 MDEVLSSVAETIKN--FAVIYLVDISEVPDFNTMYEL 37 (104)
Q Consensus 3 mDe~L~~~a~~v~~--fa~IY~vDi~eVpdfn~myeL 37 (104)
++++|.+.--.+++ -..+|+.|++..+.+|+.|.-
T Consensus 35 i~~~L~~aG~~~~dVv~~~iyl~d~~~~~~~n~~~~~ 71 (101)
T cd06155 35 LREILQSNGLSLSDILYVTLYLRDMSDFAEVNSVYGT 71 (101)
T ss_pred HHHHHHHcCCCHHHEEEEEEEECCHHHHHHHHHHHHH
Confidence 34455554444455 467899999999999998874
No 82
>PF01320 Colicin_Pyocin: Colicin immunity protein / pyocin immunity protein; InterPro: IPR023802 Bacterial colicin and pyocin immunity proteins [, ] can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity. The 1.8-angstrom crystal structure of the ImmE7 protein consists of four antiparallel alpha-helices []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. Pyocin protects a cell that harbours the plasmid ColE2 encoding colicin E2 against colicin E2; it is thus essential both for autonomous replication and colicin E2 immunity []. This entry represents the structural domain of colicin and pyocin immunity proteins.; GO: 0015643 toxin binding, 0030153 bacteriocin immunity; PDB: 1GXH_A 1GXG_A 1MZ8_C 2ERH_A 1ZNV_C 1AYI_A 1UNK_A 2JBG_A 7CEI_A 1CEI_A ....
Probab=34.96 E-value=30 Score=23.91 Aligned_cols=17 Identities=18% Similarity=0.587 Sum_probs=15.0
Q ss_pred CChhHHHHHHHHHhhcc
Q 034085 69 KDKQEFIDIVETVYRGA 85 (104)
Q Consensus 69 ~~kQefIDiie~iyrgA 85 (104)
-+++|||++|+.|+.+-
T Consensus 10 yTE~EFl~~v~~i~~~~ 26 (85)
T PF01320_consen 10 YTESEFLEFVKEIFNAE 26 (85)
T ss_dssp SBHHHHHHHHHHHHHTC
T ss_pred hhHHHHHHHHHHHHcCC
Confidence 46899999999999875
No 83
>cd02983 P5_C P5 family, C-terminal redox inactive TRX-like domain; P5 is a protein disulfide isomerase (PDI)-related protein with a domain structure of aa'b (where a and a' are redox active TRX domains and b is a redox inactive TRX-like domain). Like PDI, P5 is located in the endoplasmic reticulum (ER) and displays both isomerase and chaperone activities, which are independent of each other. Compared to PDI, the isomerase and chaperone activities of P5 are lower. The first cysteine in the CXXC motif of both redox active domains in P5 is necessary for isomerase activity. The P5 gene was first isolated as an amplified gene from a hydroxyurea-resistant hamster cell line. The zebrafish P5 homolog has been implicated to play a critical role in establishing left/right asymmetries in the embryonic midline. The C-terminal domain is likely involved in substrate binding, similar to the b and b' domains of PDI.
Probab=33.37 E-value=1.7e+02 Score=20.54 Aligned_cols=40 Identities=20% Similarity=0.130 Sum_probs=32.2
Q ss_pred hHHHHHhHHhhhcc-eEEEEEeCCCccccccccccc--ccceE
Q 034085 4 DEVLSSVAETIKNF-AVIYLVDISEVPDFNTMYELY--DPSTV 43 (104)
Q Consensus 4 De~L~~~a~~v~~f-a~IY~vDi~eVpdfn~myeL~--dP~tv 43 (104)
-+.|.++|++.+.= ..+..+|.++=+.+-+.|.|. +.+++
T Consensus 43 ~~~l~~vAk~~kgk~i~Fv~vd~~~~~~~~~~fgl~~~~~P~v 85 (130)
T cd02983 43 LEILKSVAEKFKKKPWGWLWTEAGAQLDLEEALNIGGFGYPAM 85 (130)
T ss_pred HHHHHHHHHHhcCCcEEEEEEeCcccHHHHHHcCCCccCCCEE
Confidence 36788999998887 788899999988899999983 44453
No 84
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=33.15 E-value=23 Score=27.30 Aligned_cols=21 Identities=38% Similarity=0.798 Sum_probs=14.9
Q ss_pred ccccceEEEEEeCceeEEecCCCC
Q 034085 37 LYDPSTVMFFFRNKHIMIDLGTGN 60 (104)
Q Consensus 37 L~dP~tvMFFfrnkHm~vD~GTgn 60 (104)
||-|-.+- -|.|.+||.|||=
T Consensus 73 lYVPGkl~---d~~k~lVDIGTGY 93 (153)
T KOG3048|consen 73 LYVPGKLS---DNSKFLVDIGTGY 93 (153)
T ss_pred eeccceec---cccceeEeccCce
Confidence 34566643 3788899999993
No 85
>cd02988 Phd_like_VIAF Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis. It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=31.53 E-value=94 Score=23.45 Aligned_cols=46 Identities=11% Similarity=0.148 Sum_probs=30.2
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeCce
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKH 51 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkH 51 (104)
.|+.+|.++|.+-.. +.++-+|++.. ..-|.+..=+|+++|.+++-
T Consensus 119 ~m~~~l~~LA~k~~~-vkFvkI~ad~~---~~~~~i~~lPTlliyk~G~~ 164 (192)
T cd02988 119 LLNQHLSELARKFPD-TKFVKIISTQC---IPNYPDKNLPTILVYRNGDI 164 (192)
T ss_pred HHHHHHHHHHHHCCC-CEEEEEEhHHh---HhhCCCCCCCEEEEEECCEE
Confidence 478899999998654 56677787753 34566654457666655543
No 86
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.
Probab=30.23 E-value=46 Score=23.82 Aligned_cols=32 Identities=16% Similarity=0.280 Sum_probs=27.1
Q ss_pred CcchHHHHHhHHhhhcceEEEEEeCCCccccc
Q 034085 1 MQMDEVLSSVAETIKNFAVIYLVDISEVPDFN 32 (104)
Q Consensus 1 m~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn 32 (104)
|.+.+.|.++..++.-...|.+.|.|-||-..
T Consensus 1 ~~l~~~L~~ll~~v~Gl~~I~itDrDGvpi~~ 32 (119)
T PF08923_consen 1 DELKRFLQKLLSRVDGLQAIVITDRDGVPIAK 32 (119)
T ss_dssp HHHHHHHHHHGGGSTTEEEEEEEETTS-EEEE
T ss_pred ChHHHHHHHHHhccCCeEEEEEECCCCcEEEE
Confidence 35678899999999999999999999999866
No 87
>PRK00831 rpmJ 50S ribosomal protein L36; Validated
Probab=30.07 E-value=37 Score=20.90 Aligned_cols=18 Identities=50% Similarity=0.519 Sum_probs=15.7
Q ss_pred ccCceeEEccCCcccccc
Q 034085 86 RKGRGLVIAPKDYSTKYR 103 (104)
Q Consensus 86 ~kGkglV~sP~dy~~~~~ 103 (104)
++|+..|+++.++..++|
T Consensus 22 R~grv~Vick~nprhKqR 39 (41)
T PRK00831 22 RKGRVYVINKKNPRFKAR 39 (41)
T ss_pred eCCEEEEEcCCCCccccc
Confidence 689999999999888765
No 88
>PF07978 NIPSNAP: NIPSNAP ; InterPro: IPR012577 Members of this family include many hypothetical proteins. It also includes members of the NIPSNAP family, which have putative roles in vesicular transport []. This domain is often found in duplicate.; PDB: 1VQY_D 2AP6_H.
Probab=29.60 E-value=1.4e+02 Score=18.97 Aligned_cols=61 Identities=15% Similarity=0.286 Sum_probs=43.5
Q ss_pred EEEEEeCCCcccccccccc-----c--ccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHHHhhc
Q 034085 19 VIYLVDISEVPDFNTMYEL-----Y--DPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVETVYRG 84 (104)
Q Consensus 19 ~IY~vDi~eVpdfn~myeL-----~--dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~iyrg 84 (104)
.+|.+.-.++++|.+.|+= . -.+.++.+|.. +.|..|.--..|.++|-++....-+.+++.
T Consensus 4 r~Y~l~pg~~~~~~~~~~~~~~~~~~~~g~~lvG~~~~-----~~G~~~~~~~l~~y~~~~~r~~~~~a~~~d 71 (102)
T PF07978_consen 4 RTYTLKPGKMDEFLELFEEALIPRQKKHGGKLVGYWVT-----EVGPLNQVVHLWSYDDLAAREEAREALYAD 71 (102)
T ss_dssp EEEEESTT-HHHHHHHHHHCCHHHHHHHH-EEEEEEEE-----EESBSSEEEEEEEES-HHHHHHHHHHHHH-
T ss_pred EEEEECCCCHHHHHHHHHHHHHHHHHHhCCceeEEEEe-----ccCCCceEEEEEEcCCHHHHHHHHHHHHcC
Confidence 3578888888888777763 1 25778888854 888866666788999999999998888743
No 89
>PTZ00135 60S acidic ribosomal protein P0; Provisional
Probab=28.85 E-value=94 Score=25.58 Aligned_cols=91 Identities=20% Similarity=0.228 Sum_probs=62.4
Q ss_pred HHHHHhHHhhhcceEEEEEeCCCccccccccccc---ccceEEEEEeCceeEEecCCC---------------CCceEEe
Q 034085 5 EVLSSVAETIKNFAVIYLVDISEVPDFNTMYELY---DPSTVMFFFRNKHIMIDLGTG---------------NNNKINW 66 (104)
Q Consensus 5 e~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~---dP~tvMFFfrnkHm~vD~GTg---------------nnnKin~ 66 (104)
+...++.+.++++-.||+||.+-|+. ++|=+|. -+-+.+++-+|+=|+.=+|.- +|+-+.|
T Consensus 12 ~~v~~l~e~l~~y~~v~vv~~~nv~s-~ql~~iR~~LR~~a~~~vgKNTL~r~AL~~~~~~~~~l~~L~~~LkG~~gliF 90 (310)
T PTZ00135 12 AYFEKLYELLEKYKKILIVSVDNVGS-KQMQDIRRSLRGKAELLMGKNTLIRKALKQRLEELPELEKLLPHVKGNVGFVF 90 (310)
T ss_pred HHHHHHHHHHHhCCEEEEEEcCCCCH-HHHHHHHHHHhcCCEEEEEehHHHHHHHhhCcccccChHHHHhhccCCEEEEE
Confidence 56788999999999999999988764 4555552 123457889999998866642 1233455
Q ss_pred ecCChhHHHHHHHHHhhccccCceeEEccCC
Q 034085 67 ALKDKQEFIDIVETVYRGARKGRGLVIAPKD 97 (104)
Q Consensus 67 ~~~~kQefIDiie~iyrgA~kGkglV~sP~d 97 (104)
.-+|..+..++++.--+.+ --|+=.+||.|
T Consensus 91 Tn~dp~ev~k~l~~~k~~~-~AKaG~iAp~d 120 (310)
T PTZ00135 91 TKDDLFEVKPVILENKVPA-PARAGVIAPID 120 (310)
T ss_pred ECCCHHHHHHHHHHcCCcc-ccccCCCCCce
Confidence 5567888888887766653 34444566655
No 90
>PTZ00102 disulphide isomerase; Provisional
Probab=28.20 E-value=1.9e+02 Score=23.46 Aligned_cols=47 Identities=19% Similarity=0.276 Sum_probs=33.9
Q ss_pred HHHHhHHhhhc---ceEEEEEeCCCcccccccccccccceEEEEEeCcee
Q 034085 6 VLSSVAETIKN---FAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHI 52 (104)
Q Consensus 6 ~L~~~a~~v~~---fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm 52 (104)
.+.++|+.++. -..++.||.++-++..+-|.+.-.+|+++|-+++.+
T Consensus 70 ~~~~~a~~~~~~~~~i~~~~vd~~~~~~l~~~~~i~~~Pt~~~~~~g~~~ 119 (477)
T PTZ00102 70 EYKKAAKMLKEKKSEIVLASVDATEEMELAQEFGVRGYPTIKFFNKGNPV 119 (477)
T ss_pred HHHHHHHHHHhcCCcEEEEEEECCCCHHHHHhcCCCcccEEEEEECCceE
Confidence 35566666643 377888999999999888999888887666555544
No 91
>cd02959 ERp19 Endoplasmic reticulum protein 19 (ERp19) family; ERp19 is also known as ERp18, a protein located in the ER containing one redox active TRX domain. Denaturation studies indicate that the reduced form is more stable than the oxidized form, suggesting that the protein is involved in disulfide bond formation. In vitro, ERp19 has been shown to possess thiol-disulfide oxidase activity which is dependent on the presence of both active site cysteines. Although described as protein disulfide isomerase (PDI)-like, the protein does not complement for PDI activity. ERp19 shows a wide tissue distribution but is most abundant in liver, testis, heart and kidney.
Probab=27.93 E-value=1e+02 Score=21.00 Aligned_cols=44 Identities=7% Similarity=0.150 Sum_probs=22.3
Q ss_pred chHHHHHhHHhhhcceEEEEEeCCCccc-ccccccccc--cceEEEE
Q 034085 3 MDEVLSSVAETIKNFAVIYLVDISEVPD-FNTMYELYD--PSTVMFF 46 (104)
Q Consensus 3 mDe~L~~~a~~v~~fa~IY~vDi~eVpd-fn~myeL~d--P~tvMFF 46 (104)
|+..+.+.++..+.-..++.||+++-++ ..+.|.+.- .+|++||
T Consensus 37 ~~~~~~~~~~~~~~~~~fv~v~vd~~~~~~~~~~~~~g~~vPt~~f~ 83 (117)
T cd02959 37 LKPKFAESKEISELSHNFVMVNLEDDEEPKDEEFSPDGGYIPRILFL 83 (117)
T ss_pred HHHHHhhhHHHHhhcCcEEEEEecCCCCchhhhcccCCCccceEEEE
Confidence 4445555444322222466778776542 345666632 5565444
No 92
>PRK00293 dipZ thiol:disulfide interchange protein precursor; Provisional
Probab=27.72 E-value=1.5e+02 Score=25.98 Aligned_cols=65 Identities=15% Similarity=0.267 Sum_probs=39.3
Q ss_pred HHhHHhhhcceEEEEEeCCC----cccccccccccccceEEEEEeC-ceeEEecCCCCCceEEeecCChhHHHHHHHHH
Q 034085 8 SSVAETIKNFAVIYLVDISE----VPDFNTMYELYDPSTVMFFFRN-KHIMIDLGTGNNNKINWALKDKQEFIDIVETV 81 (104)
Q Consensus 8 ~~~a~~v~~fa~IY~vDi~e----Vpdfn~myeL~dP~tvMFFfrn-kHm~vD~GTgnnnKin~~~~~kQefIDiie~i 81 (104)
.+++++++++ +++-+|+++ .+++-+-|.+.-++|++||=++ +-+.. .++.+. .++++|.+.++.+
T Consensus 500 ~~v~~~l~~~-~~v~vDvt~~~~~~~~l~~~~~v~g~Pt~~~~~~~G~~i~~-------~r~~G~-~~~~~f~~~L~~~ 569 (571)
T PRK00293 500 PQVQQALADT-VLLQADVTANNAEDVALLKHYNVLGLPTILFFDAQGQEIPD-------ARVTGF-MDAAAFAAHLRQL 569 (571)
T ss_pred HHHHHHhcCC-EEEEEECCCCChhhHHHHHHcCCCCCCEEEEECCCCCCccc-------ccccCC-CCHHHHHHHHHHh
Confidence 3455666775 456789874 4567777888888886554211 21111 223333 3688999888763
No 93
>KOG0911 consensus Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=26.21 E-value=42 Score=27.19 Aligned_cols=47 Identities=30% Similarity=0.493 Sum_probs=37.9
Q ss_pred cchHHHHHhHHhhhcceEEEEEeCCCccccccccccc-ccceEEEEEeCc
Q 034085 2 QMDEVLSSVAETIKNFAVIYLVDISEVPDFNTMYELY-DPSTVMFFFRNK 50 (104)
Q Consensus 2 ~mDe~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~-dP~tvMFFfrnk 50 (104)
+||+++..+++.. +-+...-.+.++.|+-..++++. -|-.+ ||+..+
T Consensus 34 q~~~v~~~~~~~~-~~~~~~k~~a~~~~eis~~~~v~~vp~~~-~~~~~~ 81 (227)
T KOG0911|consen 34 QMDQVFDHLAEYF-KNAQFLKLEAEEFPEISNLIAVEAVPYFV-FFFLGE 81 (227)
T ss_pred hHHHHHHHHHHhh-hhheeeeehhhhhhHHHHHHHHhcCceee-eeecch
Confidence 6899999999999 66777888999999999999995 46665 554343
No 94
>cd06150 YjgF_YER057c_UK114_like_2 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=25.67 E-value=17 Score=24.24 Aligned_cols=34 Identities=21% Similarity=0.462 Sum_probs=23.2
Q ss_pred hHHHHHhHHhhhc--ceEEEEEeCCCcccccccccc
Q 034085 4 DEVLSSVAETIKN--FAVIYLVDISEVPDFNTMYEL 37 (104)
Q Consensus 4 De~L~~~a~~v~~--fa~IY~vDi~eVpdfn~myeL 37 (104)
+++|.+.--.+++ ...||+.|++..+.+|+.|.=
T Consensus 39 ~~~L~~~G~~~~dvvk~~vyl~d~~~~~~~~~~~~~ 74 (105)
T cd06150 39 DALLAEAGSDKSRILSATIWLADMADFAAMNAVWDA 74 (105)
T ss_pred HHHHHHcCCCHHHEEEEEEEEccHHHHHHHHHHHHH
Confidence 3444444444445 357899999999999988763
No 95
>PF08800 VirE_N: VirE N-terminal domain; InterPro: IPR014907 This domain is associated with the N terminus of Virulence E proteins. The function of the domain is unknown.
Probab=25.14 E-value=1.2e+02 Score=21.61 Aligned_cols=53 Identities=23% Similarity=0.368 Sum_probs=35.0
Q ss_pred HHhhhcceEEEEEeCCCcc--cccccccc--cccceEEEEEeCceeEEecCCCCCceEEeecCCh
Q 034085 11 AETIKNFAVIYLVDISEVP--DFNTMYEL--YDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDK 71 (104)
Q Consensus 11 a~~v~~fa~IY~vDi~eVp--dfn~myeL--~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~k 71 (104)
+..++.+--+.++||+-++ +..++-++ .||.|++.|- .-+|+--|+...+...
T Consensus 24 ~~~l~~~sglv~lDiD~l~~ee~~~~r~~l~~~p~t~~~f~--------SpSG~GvKi~v~~~~~ 80 (136)
T PF08800_consen 24 ADNLKAYSGLVVLDIDHLDPEEAEELRQLLFEDPYTLAAFV--------SPSGRGVKIIVPFDYP 80 (136)
T ss_pred hhhhhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCcEEEEEE--------cCCCCeEEEEEEecCC
Confidence 3456777888999999997 33333333 6899977775 3345557776665433
No 96
>PF10413 Rhodopsin_N: Amino terminal of the G-protein receptor rhodopsin; InterPro: IPR019477 Rhodopsin is the archetypal G-protein-coupled receptor. Such receptors participate in virtually all physiological processes as signalling molecules. They utilise heterotrimeric guanosine triphosphate (GTP)-binding proteins to transduce extracellular signals to intracellular events. Rhodopsin is important because of the pivotal role it plays in visual signal transduction. It is a dimeric transmembrane protein whose intradiskal surface consists of an N-terminal domain and three loops connecting six of the seven transmembrane helices. The N-terminal domain is a compact alpha-helical region with breaks and bends at proline residues outside the membrane []. This entry represents the N-terminal domain, while the transmembrane region is represented by (IPR000276 from INTERPRO). The N-terminal domain is extracellular is and is necessary for successful dimerisation and molecular stability []. ; PDB: 3PXO_A 4A4M_A 3OAX_A 2J4Y_A 2HPY_A 1F88_B 3PQR_A 1L9H_B 2I37_B 1GZM_B ....
Probab=24.53 E-value=16 Score=22.05 Aligned_cols=13 Identities=31% Similarity=0.659 Sum_probs=9.2
Q ss_pred CceeEEccCCccc
Q 034085 88 GRGLVIAPKDYST 100 (104)
Q Consensus 88 GkglV~sP~dy~~ 100 (104)
--|+|.||..|..
T Consensus 15 ~TGvVRsP~eYpQ 27 (36)
T PF10413_consen 15 RTGVVRSPYEYPQ 27 (36)
T ss_dssp TTSHHS-TTTSHH
T ss_pred ccccccCCCcCcc
Confidence 3589999999753
No 97
>cd00448 YjgF_YER057c_UK114_family YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=24.31 E-value=21 Score=22.79 Aligned_cols=34 Identities=21% Similarity=0.531 Sum_probs=23.7
Q ss_pred hHHHHHhHHhhhc--ceEEEEEeCCCcccccccccc
Q 034085 4 DEVLSSVAETIKN--FAVIYLVDISEVPDFNTMYEL 37 (104)
Q Consensus 4 De~L~~~a~~v~~--fa~IY~vDi~eVpdfn~myeL 37 (104)
+++|.+..-.+++ -..+|++|.+..+.+|+.|+.
T Consensus 42 ~~~L~~~g~~~~~iv~~~~yv~~~~~~~~~~~~~~~ 77 (107)
T cd00448 42 EAVLEAAGGSLDDVVKVTVYLTDMADFAAVNEVYDE 77 (107)
T ss_pred HHHHHHcCCCHHHEEEEEEEEecHHHHHHHHHHHHH
Confidence 4444444433344 367899999999999988875
No 98
>TIGR00004 endoribonuclease L-PSP, putative. This protein was described initially as an inhibitor of protein synthesis intiation but is now viewed as an endoribonuclease active on single-stranded mRNA. The cleavage of mRNA is responsible for the inhibition of protein synthesis. A role in purine regulation has also been suggested.
Probab=24.25 E-value=24 Score=24.06 Aligned_cols=34 Identities=15% Similarity=0.516 Sum_probs=23.1
Q ss_pred chHHHHHhHHhhhc--ceEEEEEeCCCccccccccc
Q 034085 3 MDEVLSSVAETIKN--FAVIYLVDISEVPDFNTMYE 36 (104)
Q Consensus 3 mDe~L~~~a~~v~~--fa~IY~vDi~eVpdfn~mye 36 (104)
++++|.+.--.+++ -..+|++|++..+.+|+.|.
T Consensus 57 i~~~L~~aG~~~~dvv~~~vyv~~~~~~~~~~~~~~ 92 (124)
T TIGR00004 57 LKAILEAAGLSLDDVVKTTVFLTDLNDFAEVNEVYG 92 (124)
T ss_pred HHHHHHHcCCCHHHEEEEEEEEeChHHHHHHHHHHH
Confidence 34555554333445 46789999998888888776
No 99
>PTZ00102 disulphide isomerase; Provisional
Probab=22.87 E-value=2.6e+02 Score=22.59 Aligned_cols=71 Identities=11% Similarity=0.119 Sum_probs=43.0
Q ss_pred chHHHHHhHHhhhc--ceEEEEEeCCCcccccccccccccceEEEEEeCceeEEecCCCCCceEEeecCChhHHHHHHHH
Q 034085 3 MDEVLSSVAETIKN--FAVIYLVDISEVPDFNTMYELYDPSTVMFFFRNKHIMIDLGTGNNNKINWALKDKQEFIDIVET 80 (104)
Q Consensus 3 mDe~L~~~a~~v~~--fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrnkHm~vD~GTgnnnKin~~~~~kQefIDiie~ 80 (104)
|-.++.++|.+.+. -..++.+|.++-+...+-|.+.--+|++||=+++.+.+ .+.+ -.+.+++++.|+.
T Consensus 393 ~~p~~~~~a~~~~~~~~v~~~~id~~~~~~~~~~~~v~~~Pt~~~~~~~~~~~~--------~~~G-~~~~~~l~~~i~~ 463 (477)
T PTZ00102 393 LEPVYNELGEKYKDNDSIIVAKMNGTANETPLEEFSWSAFPTILFVKAGERTPI--------PYEG-ERTVEGFKEFVNK 463 (477)
T ss_pred HHHHHHHHHHHhccCCcEEEEEEECCCCccchhcCCCcccCeEEEEECCCccee--------EecC-cCCHHHHHHHHHH
Confidence 44567778877654 46678889887766666777766677544433332211 1222 2355777777776
Q ss_pred Hh
Q 034085 81 VY 82 (104)
Q Consensus 81 iy 82 (104)
..
T Consensus 464 ~~ 465 (477)
T PTZ00102 464 HA 465 (477)
T ss_pred cC
Confidence 44
No 100
>KOG0191 consensus Thioredoxin/protein disulfide isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=22.85 E-value=1.2e+02 Score=24.62 Aligned_cols=43 Identities=23% Similarity=0.230 Sum_probs=36.9
Q ss_pred HHHhHHhhhcceEEEEEeCCCcccccccccccccceEEEEEeC
Q 034085 7 LSSVAETIKNFAVIYLVDISEVPDFNTMYELYDPSTVMFFFRN 49 (104)
Q Consensus 7 L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~dP~tvMFFfrn 49 (104)
..+++..++....+-.||.++-++..+.|++.-.+|+.+|..+
T Consensus 69 ~~~~~~~l~~~~~~~~vd~~~~~~~~~~y~i~gfPtl~~f~~~ 111 (383)
T KOG0191|consen 69 YKKLAKALKGKVKIGAVDCDEHKDLCEKYGIQGFPTLKVFRPG 111 (383)
T ss_pred HHHHHHHhcCceEEEEeCchhhHHHHHhcCCccCcEEEEEcCC
Confidence 4467777778788899999999999999999999998777766
No 101
>COG0836 {ManC} Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=22.65 E-value=91 Score=26.60 Aligned_cols=36 Identities=33% Similarity=0.692 Sum_probs=31.1
Q ss_pred cCChhHHHHHHHHHhhccccCceeE---EccCCccccccC
Q 034085 68 LKDKQEFIDIVETVYRGARKGRGLV---IAPKDYSTKYRY 104 (104)
Q Consensus 68 ~~~kQefIDiie~iyrgA~kGkglV---~sP~dy~~~~~~ 104 (104)
+.|.+.|.+-|...-.-|.+| .|| +.|--..|-|.|
T Consensus 118 I~d~~af~~av~~A~~~A~~g-~lVTfGI~Pt~PeTGYGY 156 (333)
T COG0836 118 IADEEAFLNAVKKAEKAAEEG-GIVTFGIPPTRPETGYGY 156 (333)
T ss_pred eccHHHHHHHHHHHHHHHHcC-CEEEEecCCCCCccCcce
Confidence 678899999999999999999 666 578888888876
No 102
>TIGR03610 RutC pyrimidine utilization protein C. This protein is observed in operons extremely similar to that characterized in E. coli K-12 responsible for the import and catabolism of pyrimidines, primarily uracil. This protein is a member of the endoribonuclease L-PSP family defined by pfam01042.
Probab=22.43 E-value=22 Score=25.01 Aligned_cols=34 Identities=18% Similarity=0.400 Sum_probs=23.1
Q ss_pred hHHHHHhHHhhhcc--eEEEEEeCCCcccccccccc
Q 034085 4 DEVLSSVAETIKNF--AVIYLVDISEVPDFNTMYEL 37 (104)
Q Consensus 4 De~L~~~a~~v~~f--a~IY~vDi~eVpdfn~myeL 37 (104)
+++|...--.+++. ..||+.|++..+.+|+.|+-
T Consensus 60 ~~iL~~aG~~~~dvv~~~iyl~d~~~~~~~~~~~~~ 95 (127)
T TIGR03610 60 KSVIETAGGTMDDVTFNHIFIRDWADYAAINEVYAE 95 (127)
T ss_pred HHHHHHcCCCHHHEEEEEEEEcCHHHHHHHHHHHHH
Confidence 44444444344443 46899999999999988863
No 103
>PF13848 Thioredoxin_6: Thioredoxin-like domain; PDB: 3EC3_B 3BOA_A 2B5E_A 1BJX_A 2K18_A 3UEM_A 3BJ5_A 2BJX_A 2R2J_A 2L4C_A ....
Probab=22.39 E-value=2e+02 Score=19.66 Aligned_cols=39 Identities=23% Similarity=0.391 Sum_probs=31.4
Q ss_pred HHHHHhHHhhhcceEEEEEeCCCccccccccccc--c-cceE
Q 034085 5 EVLSSVAETIKNFAVIYLVDISEVPDFNTMYELY--D-PSTV 43 (104)
Q Consensus 5 e~L~~~a~~v~~fa~IY~vDi~eVpdfn~myeL~--d-P~tv 43 (104)
+.|.++|.+.++=..+..+|.+..++..+.+.+. + |.-+
T Consensus 115 ~~l~~~a~~~~~~~~f~~~d~~~~~~~~~~~~i~~~~~P~~v 156 (184)
T PF13848_consen 115 KELQDIAKKFKGKINFVYVDADDFPRLLKYFGIDEDDLPALV 156 (184)
T ss_dssp HHHHHHHHCTTTTSEEEEEETTTTHHHHHHTTTTTSSSSEEE
T ss_pred HHHHHHHHhcCCeEEEEEeehHHhHHHHHHcCCCCccCCEEE
Confidence 4567888888887888999999999999999885 3 5553
No 104
>TIGR01866 cas_Csn2 CRISPR-associated protein, Csn2 family. CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas loci. The species range so far for this subtype is animal pathogens and commensals only. This protein is present in some but not all NMENI CRISPR/Cas loci.
Probab=22.23 E-value=1.2e+02 Score=23.99 Aligned_cols=32 Identities=25% Similarity=0.301 Sum_probs=26.3
Q ss_pred EEeecCChhHHHHHHHHHhhccccCceeEEcc
Q 034085 64 INWALKDKQEFIDIVETVYRGARKGRGLVIAP 95 (104)
Q Consensus 64 in~~~~~kQefIDiie~iyrgA~kGkglV~sP 95 (104)
-.|.++|+..|-++|...|+|...+-|..++-
T Consensus 18 tvl~ien~~vf~~~V~~l~~~~~~~d~~~~l~ 49 (216)
T TIGR01866 18 TILVLENKCVFSKIVQYLYQYESGEDGELILS 49 (216)
T ss_pred EEEEEcCHHHHHHHHHHHHccccCCccceeec
Confidence 45789999999999999999996666666543
No 105
>cd07039 TPP_PYR_POX Pyrimidine (PYR) binding domain of POX. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites. Lactobacillus plantarum POX is a homotetramer (dimer-of-homodimers), having two active sites per homodimer lying between PYR and PP domains of differ
Probab=22.15 E-value=1.1e+02 Score=22.06 Aligned_cols=31 Identities=16% Similarity=0.287 Sum_probs=26.8
Q ss_pred ceEEeecCChhHHHHHHHHHhhccccCceeE
Q 034085 62 NKINWALKDKQEFIDIVETVYRGARKGRGLV 92 (104)
Q Consensus 62 nKin~~~~~kQefIDiie~iyrgA~kGkglV 92 (104)
.|+...+++.+++-..++..+|-|+.++|=|
T Consensus 122 tk~~~~v~~~~~~~~~i~~A~~~a~~~~GPV 152 (164)
T cd07039 122 AVYNETVTSPEQLPELLDRAIRTAIAKRGVA 152 (164)
T ss_pred hcEEEEeCCHHHHHHHHHHHHHHHhcCCCCE
Confidence 4899999999999999999999987777644
No 106
>PF01042 Ribonuc_L-PSP: Endoribonuclease L-PSP; InterPro: IPR006175 This domain is found in endoribonuclease, that is active on single-stranded mRNA and inhibits protein synthesis by cleavage of mRNA []. Previously it was thought to inhibit protein synthesis initiation []. This endoribonuclease may also be involved in the regulation of purine biosynthesis []. ; PDB: 3GTZ_B 3V4D_E 1J7H_A 3R0P_D 2IG8_A 1QD9_B 3L7Q_E 3VCZ_A 3QUW_A 2EWC_K ....
Probab=21.97 E-value=33 Score=23.28 Aligned_cols=35 Identities=20% Similarity=0.619 Sum_probs=23.5
Q ss_pred chHHHHHhHHhhhcc--eEEEEEeCCCcccccccccc
Q 034085 3 MDEVLSSVAETIKNF--AVIYLVDISEVPDFNTMYEL 37 (104)
Q Consensus 3 mDe~L~~~a~~v~~f--a~IY~vDi~eVpdfn~myeL 37 (104)
++.+|.+.--.+++. ..+|+.|+++.+.+++.|+-
T Consensus 52 i~~~L~~~G~~~~dvv~~~~yl~d~~~~~~~~~v~~~ 88 (121)
T PF01042_consen 52 IERILAAAGASLDDVVKVTVYLTDMSDFPAVNEVWKE 88 (121)
T ss_dssp HHHHHHHTTS-GGGEEEEEEEESSGGGHHHHHHHHHH
T ss_pred hhhhhhcCCCcceeEeeeeehhhhhhhhHHHHHHHHH
Confidence 344555544444443 46899999999998888875
No 107
>COG2351 Transthyretin-like protein [General function prediction only]
Probab=21.76 E-value=18 Score=27.01 Aligned_cols=50 Identities=24% Similarity=0.276 Sum_probs=35.4
Q ss_pred EecCCCCCceEEeecCChhHHHHHHHHHhhccccCc----eeEEccCCcccccc
Q 034085 54 IDLGTGNNNKINWALKDKQEFIDIVETVYRGARKGR----GLVIAPKDYSTKYR 103 (104)
Q Consensus 54 vD~GTgnnnKin~~~~~kQefIDiie~iyrgA~kGk----glV~sP~dy~~~~~ 103 (104)
+.|-+|+.++=.++-.--.-|.|+|+.-|.=|..+. =|.+||+-|||-+.
T Consensus 70 l~F~~gdYf~~~g~~~~~~~Fl~~V~vrF~iad~~~HYHVPLLlSPygYSTYRG 123 (124)
T COG2351 70 LVFHTGDYFKSRGVQLADPPFLDVVPVRFGIADVDEHYHVPLLLSPYGYSTYRG 123 (124)
T ss_pred EEEEcchhhhccCcccCCCCccceEEEEEEEcCCCCceeeeeEecCcccceecC
Confidence 445577777665543444569999998887775654 48899999998653
No 108
>KOG1643 consensus Triosephosphate isomerase [Carbohydrate transport and metabolism]
Probab=21.45 E-value=1.1e+02 Score=25.14 Aligned_cols=36 Identities=33% Similarity=0.440 Sum_probs=26.1
Q ss_pred CCCCceEEeecCChhHHHHHHHHHhhccccCc-eeEEccC
Q 034085 58 TGNNNKINWALKDKQEFIDIVETVYRGARKGR-GLVIAPK 96 (104)
Q Consensus 58 TgnnnKin~~~~~kQefIDiie~iyrgA~kGk-glV~sP~ 96 (104)
-|.|.|+|+ ++|.+-.||++.=-.+--+- -.|+||-
T Consensus 7 vgGNwKmng---s~~s~~eii~~ln~a~~~~~vevvi~pP 43 (247)
T KOG1643|consen 7 VGGNWKMNG---SKQSIKEIIKTLNAAKLPANVEVVIAPP 43 (247)
T ss_pred ecccccccC---cHHHHHHHHHHhhhccCCCCCcEEEeCC
Confidence 478899995 67888888888776665554 5666664
No 109
>TIGR01130 ER_PDI_fam protein disulfide isomerases, eukaryotic. Members of this family have at least two protein-disulfide domains, each similar to thioredoxin but with the redox-active disulfide in the motif PWCGHCK, and an ER retention signal at the extreme C-terminus (KDEL, HDEL, and similar motifs).
Probab=21.05 E-value=4.2e+02 Score=20.93 Aligned_cols=42 Identities=24% Similarity=0.330 Sum_probs=28.8
Q ss_pred chHHHHHhHHhhhc---ceEEEEEeCCCcccccccccccccceEEEE
Q 034085 3 MDEVLSSVAETIKN---FAVIYLVDISEVPDFNTMYELYDPSTVMFF 46 (104)
Q Consensus 3 mDe~L~~~a~~v~~---fa~IY~vDi~eVpdfn~myeL~dP~tvMFF 46 (104)
|...+.++|+..++ -..++-+|+++- +... |.+..-+|+.||
T Consensus 382 ~~p~~~~~~~~~~~~~~~i~~~~id~~~n-~~~~-~~i~~~Pt~~~~ 426 (462)
T TIGR01130 382 LAPIYEELAEKYKDAESDVVIAKMDATAN-DVPP-FEVEGFPTIKFV 426 (462)
T ss_pred HHHHHHHHHHHhhcCCCcEEEEEEECCCC-ccCC-CCccccCEEEEE
Confidence 55678888888887 567888997642 3333 777766775454
No 110
>PF00444 Ribosomal_L36: Ribosomal protein L36; InterPro: IPR000473 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L36 is the smallest protein from the large subunit of the prokaryotic ribosome. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [] can be grouped into: bacterial L36; algal and plant chloroplast L36; Cyanelle L36. L36 is a small basic and cysteine-rich protein of 37 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3BBO_6 2HGU_8 2HGJ_8 1DGZ_A 1DFE_A 2HGQ_8 1VSP_b 1VSA_b 3PIP_4 1VOU_6 ....
Probab=21.05 E-value=64 Score=19.35 Aligned_cols=18 Identities=50% Similarity=0.558 Sum_probs=15.3
Q ss_pred ccCceeEEccCCcccccc
Q 034085 86 RKGRGLVIAPKDYSTKYR 103 (104)
Q Consensus 86 ~kGkglV~sP~dy~~~~~ 103 (104)
++|+..|+|+.++..++|
T Consensus 19 R~gr~~Vick~nprhKqr 36 (38)
T PF00444_consen 19 RKGRLYVICKKNPRHKQR 36 (38)
T ss_dssp ETTEEEEEESSSGGGCEE
T ss_pred ECCEEEEECCCCCchhcc
Confidence 689999999999887764
No 111
>cd06152 YjgF_YER057c_UK114_like_4 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=20.74 E-value=39 Score=23.31 Aligned_cols=35 Identities=14% Similarity=0.139 Sum_probs=23.4
Q ss_pred chHHHHHhH-Hhhhc--ceEEEEEeC---CCcccccccccc
Q 034085 3 MDEVLSSVA-ETIKN--FAVIYLVDI---SEVPDFNTMYEL 37 (104)
Q Consensus 3 mDe~L~~~a-~~v~~--fa~IY~vDi---~eVpdfn~myeL 37 (104)
++++|...- -.+++ -..+|++|+ +..+.+|+.|+=
T Consensus 43 l~~~L~~aG~~~~~dVvk~tvyltd~~~~~~~~~~~~~~~~ 83 (114)
T cd06152 43 VELALKAAGGKGWEQVYKVNSYHVDIKNEEAFGLMVENFKK 83 (114)
T ss_pred HHHHHHHhCCCCHHHEEEEEEEEecCCcHHHHHHHHHHHHH
Confidence 345555555 44444 357899999 678888887754
No 112
>TIGR01504 glyox_carbo_lig glyoxylate carboligase. Glyoxylate carboligase, also called tartronate-semialdehyde synthase, releases CO2 while synthesizing a single molecule of tartronate semialdehyde from two molecules of glyoxylate. It is a thiamine pyrophosphate-dependent enzyme, closely related in sequence to the large subunit of acetolactate synthase. In the D-glycerate pathway, part of allantoin degradation in the Enterobacteriaceae, tartronate semialdehyde is converted to D-glycerate and then 3-phosphoglycerate, a product of glycolysis and entry point in the general metabolism.
Probab=20.07 E-value=1.4e+02 Score=25.91 Aligned_cols=37 Identities=19% Similarity=0.343 Sum_probs=29.8
Q ss_pred CceEEeecCChhHHHHHHHHHhhccccCc-ee--EEccCC
Q 034085 61 NNKINWALKDKQEFIDIVETVYRGARKGR-GL--VIAPKD 97 (104)
Q Consensus 61 nnKin~~~~~kQefIDiie~iyrgA~kGk-gl--V~sP~d 97 (104)
-+|+.+.+.+.+++.++++..++-|+.|| |= +.=|.|
T Consensus 125 vtk~~~~v~~~~~i~~~i~~A~~~A~~~~~GPV~l~iP~D 164 (588)
T TIGR01504 125 VSKMAVTVREAALVPRVLQQAFHLMRSGRPGPVLIDLPFD 164 (588)
T ss_pred hceEEEEcCCHHHHHHHHHHHHHHHccCCCCeEEEEeCcc
Confidence 47999999999999999999999887776 43 345555
Done!